ViRBase ID 	 Virus	Host Species 	 ncRNA Source 	ncRNA Category	 ncRNA Symbol	 ncRNA Link 	 Tissue	 Expression Direction of ncRNA	 Interactor Source 	 Interactor Category	Interactor Symbol	 Interactor Link   	 Expression Direction of Interactor	Detection Method  	PMID	Description
VHID00000001	Adenovirus(ADV)	Homo sapiens	Virus	LncRNA	VAI	http://lncrnadb.com/Detail.aspx?TKeyID=231	-	-	Host	Protein	Ago2	http://www.ncbi.nlm.nih.gov/gene/27161	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00000002	Adenovirus(ADV)	Homo sapiens	Virus	LncRNA	VAI	http://lncrnadb.com/Detail.aspx?TKeyID=231	-	-	Host	Protein	DICER	http://www.ncbi.nlm.nih.gov/gene/23405	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00000003	Adenovirus(ADV)	Homo sapiens	Virus	LncRNA	VAI	http://lncrnadb.com/Detail.aspx?TKeyID=231	-	-	Host	Protein	EIF2AK2(PKR)	http://www.ncbi.nlm.nih.gov/gene/5610	Downregulation	U.V.-crosslinking and gel electrophoresis, peptide phosphorylation assay, Filter binding assays.	7901835	The interferon-inducible protein kinase PKR interacts with a number of small viral RNA species, including adenovirus VAI RNA and the Epstein-Barr virus-encoded RNA EBER-1.Using a peptide phosphorylation assay we show here that EBER-1, like VAI, directly inhibits the activation of purified PKR. A second Epstein-Barr virus RNA, EBER-2, also regulates PKR. EBER-1, EBER-2 and VAI RNA exhibit mutually competitive binding to the native or recombinant enzyme, as assessed by U.V. crosslinking experiments and filter binding assays. .
VHID00000004	Adenovirus(ADV)	Homo sapiens	Virus	LncRNA	VAI	http://lncrnadb.com/Detail.aspx?TKeyID=231	-	-	Host	Protein	La	http://www.ncbi.nlm.nih.gov/gene/6741	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00000005	Adenovirus(ADV)	Homo sapiens	Virus	LncRNA	VAI	http://lncrnadb.com/Detail.aspx?TKeyID=231	-	-	Host	Protein	PKR	http://www.ncbi.nlm.nih.gov/gene/5610	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00000006	Adenovirus(ADV)	Homo sapiens	Virus	LncRNA	VAI	http://lncrnadb.com/Detail.aspx?TKeyID=231	-	-	Host	Protein	PKR	http://www.ncbi.nlm.nih.gov/gene/5610	-	PKR autophosphorylation inhibition assays,RNA secondary structure probing, RNA UV-melting analysis.	19635730	The relative ability of the two apical stem conformations to bind PKR and inhibit kinase activity was measured by isothermal titration calorimetry and PKR autophosphorylation inhibition assay.Whether the presence of the VA RNA(I) conformation with reduced PKR inhibitory activity is directly beneficial to the virus in the cell for some other function requires further investigation.
VHID00000007	Adenovirus(ADV)	Homo sapiens	Virus	LncRNA	VAII	http://lncrnadb.com/Detail.aspx?TKeyID=231	-	-	Host	Protein	Ago2	http://www.ncbi.nlm.nih.gov/gene/27161	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00000008	Adenovirus(ADV)	Homo sapiens	Virus	LncRNA	VAII	http://lncrnadb.com/Detail.aspx?TKeyID=231	-	-	Host	Protein	DICER	http://www.ncbi.nlm.nih.gov/gene/23405	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00000009	Adenovirus(ADV)	Homo sapiens	Virus	LncRNA	VAII	http://lncrnadb.com/Detail.aspx?TKeyID=231	-	-	Host	Protein	La	http://www.ncbi.nlm.nih.gov/gene/6741	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00000010	Bombyx mori nuclearpolyhedrosis virus(BmNPV)	Bombyx mori	Virus	miRNA	bmnpv-miR-1	#	HeLa cells	-	Host	Protein	Ran	#	Downregulation	Northern blot analysis/Western blot assay.	22593162	We demonstrate that an insect virus, Bombyx mori nucleopolyhedrosis virus(BmNPV), modulates the small-RNA-mediated defense of its host, B. mori, by encoding an miRNA(bmnpv-miR-1) that downregulates the expression of the host GTP-binding nuclear protein Ran, an essential component of the exportin-5-mediated nucleocytoplasmic transport machinery mainly involved in small-RNA transport from the nucleus to the cytoplasm.
VHID00000011	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER1	http://lncrnadb.com/Detail.aspx?TKeyID=224	-	-	Host	Protein	EIF2AK2(PKR)	http://www.ncbi.nlm.nih.gov/gene/5610	Downregulation	U.V.-crosslinking and gel electrophoresis, peptide phosphorylation assay, Filter binding assays.	7901835	The interferon-inducible protein kinase PKR interacts with a number of small viral RNA species, including adenovirus VAI RNA and the Epstein-Barr virus-encoded RNA EBER-1.Using a peptide phosphorylation assay we show here that EBER-1, like VAI, directly inhibits the activation of purified PKR. A second Epstein-Barr virus RNA, EBER-2, also regulates PKR. EBER-1, EBER-2 and VAI RNA exhibit mutually competitive binding to the native or recombinant enzyme, as assessed by U.V. crosslinking experiments and filter binding assays. .
VHID00000012	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER1	http://lncrnadb.com/Detail.aspx?TKeyID=224	-	-	Host	Protein	L22	http://www.ncbi.nlm.nih.gov/gene/28892	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00000013	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER1	http://lncrnadb.com/Detail.aspx?TKeyID=224	-	-	Host	Protein	La	http://www.ncbi.nlm.nih.gov/gene/6741	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00000014	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER1	http://lncrnadb.com/Detail.aspx?TKeyID=224	-	-	Host	Protein	PKR	http://www.ncbi.nlm.nih.gov/gene/5610	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00000015	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER1	http://lncrnadb.com/Detail.aspx?TKeyID=224	-	-	Host	Protein	PKR	http://www.ncbi.nlm.nih.gov/gene/5610	Downregulation	-	20399962	EBERs have been discovered to interact with cellular proteins that play a key role in antiviral innate immunity. They bind the protein kinase RNA-dependent (PKR) and inhibit its activation, leading to resistance to PKR-mediated apoptosis.
VHID00000016	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER1	http://lncrnadb.com/Detail.aspx?TKeyID=224	-	-	Host	Protein	RIG-I	http://www.ncbi.nlm.nih.gov/gene/23586	Downregulation	-	20399962	Previous studies demonstrated that EBERs (EBER1 and EBER2) play significant roles in various EBV-infected cancer cells. EBERs induce the expression of interleukin(IL)-10 in BL cells, insulin-like growth factor(IGF)-1 in gastric carcinoma and nasopharyngeal carcinoma cells, IL-9 in T cells that act as an autocrine growth factor. It was also reported that EBERs play critical roles in the B cell growth transformation including IL-6 induction by EBER2.Recently, it was demonstrated that EBERs bind RIG-I and activate its downstream signaling, which induces expression of type-I interferon (IFN)s.
VHID00000017	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER1	http://lncrnadb.com/Detail.aspx?TKeyID=224	-	-	Host	Protein	TLR-3	http://www.ncbi.nlm.nih.gov/gene/7098	-	-	20399962	Most recently, it was reported that EBERs are secreted from EBV-infected cells and are recognized by toll-like receptor (TLR)3, leading to induction of type-I IFNs and inflammatory cytokines, and subsequent immune activation. Furthermore, EBER1 could be detected in the sera of patients with active EBV infectious diseases, suggesting that activation of TLR3 signaling by EBER1 would be account for the pathogenesis of active EBV infectious diseases.
VHID00000018	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER1	http://lncrnadb.com/Detail.aspx?TKeyID=224	B cells	-	Host	Protein	RPL22(L22)	http://www.ncbi.nlm.nih.gov/gene/6146	-	Electrophoretic mobility-shift assays(EMSAs).	16556938	Multiple domains of EBER 1, an Epstein-Barr virus noncoding RNA, recruit human ribosomal protein L22. Here we present in vitro binding studies using purified RNAs and recombinant proteins. Electrophoretic mobility-shift assays(EMSAs) show that recombinant L22(rL22) and maltose-binding protein(MBP)-tagged L22 protein bind EBER 1 in vitro, both forming three specific protein-dependent mobility shifts.
VHID00000019	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER1	http://lncrnadb.com/Detail.aspx?TKeyID=224	B lymphocytes	-	Host	Protein	SSB(La)	http://www.ncbi.nlm.nih.gov/gene/6741	-	Hybridization analyses.	6262773	Hybridization analyses indicate that EBER 1 and EBER 2 are encoded by the EcoRI-J fragment of EBV(B95-8) DNA. In vivo both RNAs are associated with protein(s), allowing their specific precipitation by the systemic lupus erythematosus-associated antibody anti-La.
VHID00000020	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER1	http://lncrnadb.com/Detail.aspx?TKeyID=224	BL cells	-	Host	Protein	IL-10	http://www.ncbi.nlm.nih.gov/gene/3586	Downregulation	-	20399962	Previous studies demonstrated that EBERs (EBER1 and EBER2) play significant roles in various EBV-infected cancer cells. EBERs induce the expression of interleukin(IL)-10 in BL cells, insulin-like growth factor(IGF)-1 in gastric carcinoma and nasopharyngeal carcinoma cells, IL-9 in T cells that act as an autocrine growth factor. It was also reported that EBERs play critical roles in the B cell growth transformation including IL-6 induction by EBER2.
VHID00000021	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER1	http://lncrnadb.com/Detail.aspx?TKeyID=224	Gastric carcinoma and nasopharyngeal carcinoma cells	-	Host	Protein	IGF-1	http://www.ncbi.nlm.nih.gov/gene/3479	Downregulation	-	20399962	Previous studies demonstrated that EBERs (EBER1 and EBER2) play significant roles in various EBV-infected cancer cells. EBERs induce the expression of interleukin(IL)-10 in BL cells, insulin-like growth factor(IGF)-1 in gastric carcinoma and nasopharyngeal carcinoma cells, IL-9 in T cells that act as an autocrine growth factor. It was also reported that EBERs play critical roles in the B cell growth transformation including IL-6 induction by EBER2.
VHID00000022	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER1	http://lncrnadb.com/Detail.aspx?TKeyID=224	Human B lymphocytes	-	Host	Protein	RPL22(L22)	http://www.ncbi.nlm.nih.gov/gene/6146	-	Situ hybridization, Two-Dimensional (2-D) Gel Electrophoresis, Immunofluorescence.	8159770	The Epstein-Barr virus (EBV) small RNA EBER1 binds and relocalizes ribosomal protein L22 in EBV-infected human B lymphocytes. In situ hybridization indicates that the EBER RNPs are predominantly nucleoplasmic, suggesting that L22 relocalization correlates with binding to EBER1 in vivo.
VHID00000023	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER1	http://lncrnadb.com/Detail.aspx?TKeyID=224	T cells	-	Host	Protein	IL-9	http://www.ncbi.nlm.nih.gov/gene/3578	Downregulation	-	20399962	Previous studies demonstrated that EBERs (EBER1 and EBER2) play significant roles in various EBV-infected cancer cells. EBERs induce the expression of interleukin(IL)-10 in BL cells, insulin-like growth factor(IGF)-1 in gastric carcinoma and nasopharyngeal carcinoma cells, IL-9 in T cells that act as an autocrine growth factor. It was also reported that EBERs play critical roles in the B cell growth transformation including IL-6 induction by EBER2.
VHID00000024	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER2	http://lncrnadb.com/Detail.aspx?TKeyID=224	-	-	Host	Protein	EIF2AK2(PKR)	http://www.ncbi.nlm.nih.gov/gene/5610	Downregulation	U.V.-crosslinking and gel electrophoresis, Peptide phosphorylation assay, Filter binding assays.	7901835	The interferon-inducible protein kinase PKR interacts with a number of small viral RNA species, including adenovirus VAI RNA and the Epstein-Barr virus-encoded RNA EBER-1. Using a peptide phosphorylation assay we show here that EBER-1, like VAI, directly inhibits the activation of purified PKR. A second Epstein-Barr virus RNA, EBER-2, also regulates PKR. .
VHID00000025	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER2	http://lncrnadb.com/Detail.aspx?TKeyID=224	-	-	Host	Protein	La	http://www.ncbi.nlm.nih.gov/gene/6741	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00000026	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER2	http://lncrnadb.com/Detail.aspx?TKeyID=224	-	-	Host	Protein	Nucleolin	http://www.ncbi.nlm.nih.gov/gene/4691	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00000027	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER2	http://lncrnadb.com/Detail.aspx?TKeyID=224	-	-	Host	Protein	PKR	http://www.ncbi.nlm.nih.gov/gene/5610	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00000028	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER2	http://lncrnadb.com/Detail.aspx?TKeyID=224	-	-	Host	Protein	PKR	http://www.ncbi.nlm.nih.gov/gene/5610	Downregulation	-	20399962	EBERs have been discovered to interact with cellular proteins that play a key role in antiviral innate immunity. They bind the protein kinase RNA-dependent (PKR) and inhibit its activation, leading to resistance to PKR-mediated apoptosis.
VHID00000029	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER2	http://lncrnadb.com/Detail.aspx?TKeyID=224	-	-	Host	Protein	RIG-I	http://www.ncbi.nlm.nih.gov/gene/23586	Downregulation	-	20399962	Previous studies demonstrated that EBERs (EBER1 and EBER2) play significant roles in various EBV-infected cancer cells. EBERs induce the expression of interleukin(IL)-10 in BL cells, insulin-like growth factor(IGF)-1 in gastric carcinoma and nasopharyngeal carcinoma cells, IL-9 in T cells that act as an autocrine growth factor. It was also reported that EBERs play critical roles in the B cell growth transformation including IL-6 induction by EBER2.Recently, it was demonstrated that EBERs bind RIG-I and activate its downstream signaling, which induces expression of type-I interferon (IFN)s.
VHID00000030	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER2	http://lncrnadb.com/Detail.aspx?TKeyID=224	-	-	Host	Protein	TLR-3	http://www.ncbi.nlm.nih.gov/gene/7098	-	-	20399962	Most recently, it was reported that EBERs are secreted from EBV-infected cells and are recognized by toll-like receptor (TLR)3, leading to induction of type-I IFNs and inflammatory cytokines, and subsequent immune activation. .
VHID00000031	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER2	http://lncrnadb.com/Detail.aspx?TKeyID=224	B cells	-	Host	Protein	IL-6	http://www.ncbi.nlm.nih.gov/gene/3569	Downregulation	-	20399962	Previous studies demonstrated that EBERs (EBER1 and EBER2) play significant roles in various EBV-infected cancer cells. EBERs induce the expression of interleukin(IL)-10 in BL cells, insulin-like growth factor(IGF)-1 in gastric carcinoma and nasopharyngeal carcinoma cells, IL-9 in T cells that act as an autocrine growth factor. It was also reported that EBERs play critical roles in the B cell growth transformation including IL-6 induction by EBER2.
VHID00000032	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER2	http://lncrnadb.com/Detail.aspx?TKeyID=224	B lymphocytes	-	Host	Protein	SSB(La)	http://www.ncbi.nlm.nih.gov/gene/6741	-	Hybridization analyses.	6262773	Hybridization analyses indicate that EBER 1 and EBER 2 are encoded by the EcoRI-J fragment of EBV(B95-8) DNA. In vivo both RNAs are associated with protein(s), allowing their specific precipitation by the systemic lupus erythematosus-associated antibody anti-La.
VHID00000033	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER2	http://lncrnadb.com/Detail.aspx?TKeyID=224	BL cells	-	Host	Protein	IL-10	http://www.ncbi.nlm.nih.gov/gene/3586	Downregulation	-	20399962	Previous studies demonstrated that EBERs (EBER1 and EBER2) play significant roles in various EBV-infected cancer cells. EBERs induce the expression of interleukin(IL)-10 in BL cells, insulin-like growth factor(IGF)-1 in gastric carcinoma and nasopharyngeal carcinoma cells, IL-9 in T cells that act as an autocrine growth factor. It was also reported that EBERs play critical roles in the B cell growth transformation including IL-6 induction by EBER2.
VHID00000034	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER2	http://lncrnadb.com/Detail.aspx?TKeyID=224	Gastric carcinoma and nasopharyngeal carcinoma cells	-	Host	Protein	IGF-1	http://www.ncbi.nlm.nih.gov/gene/3479	Downregulation	-	20399962	Previous studies demonstrated that EBERs (EBER1 and EBER2) play significant roles in various EBV-infected cancer cells. EBERs induce the expression of interleukin(IL)-10 in BL cells, insulin-like growth factor(IGF)-1 in gastric carcinoma and nasopharyngeal carcinoma cells, IL-9 in T cells that act as an autocrine growth factor. It was also reported that EBERs play critical roles in the B cell growth transformation including IL-6 induction by EBER2.
VHID00000035	Epstein-Barr virus(EBV)	Homo sapiens	Virus	LncRNA	EBER2	http://lncrnadb.com/Detail.aspx?TKeyID=224	T cells	-	Host	Protein	IL-9	http://www.ncbi.nlm.nih.gov/gene/3578	Downregulation	-	20399962	Previous studies demonstrated that EBERs (EBER1 and EBER2) play significant roles in various EBV-infected cancer cells. EBERs induce the expression of interleukin(IL)-10 in BL cells, insulin-like growth factor(IGF)-1 in gastric carcinoma and nasopharyngeal carcinoma cells, IL-9 in T cells that act as an autocrine growth factor. It was also reported that EBERs play critical roles in the B cell growth transformation including IL-6 induction by EBER2.
VHID00000036	Epstein-Barr virus(EBV)	Homo sapiens	Virus	SnoRNA	v-snoRNA1	#	-	-	Host	Protein	Fibrillarin	http://www.ncbi.nlm.nih.gov/gene/2091	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00000037	Epstein-Barr virus(EBV)	Homo sapiens	Virus	SnoRNA	v-snoRNA1	#	-	-	Host	Protein	Nop56	http://www.ncbi.nlm.nih.gov/gene/10528	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00000038	Epstein-Barr virus(EBV)	Homo sapiens	Virus	SnoRNA	v-snoRNA1	#	-	-	Host	Protein	Nop58	http://www.ncbi.nlm.nih.gov/gene/51602	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00000039	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	ALS2	http://www.ncbi.nlm.nih.gov/gene/57679	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000040	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	AMMECR1	http://www.ncbi.nlm.nih.gov/gene/9949	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000041	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	AMMECR1L	http://www.ncbi.nlm.nih.gov/gene/83607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000042	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	ANKRD13B	http://www.ncbi.nlm.nih.gov/gene/124930	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000043	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	ANKRD13C	http://www.ncbi.nlm.nih.gov/gene/81573	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000044	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	ASAP2	http://www.ncbi.nlm.nih.gov/gene/8853	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000045	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	BACH2	http://www.ncbi.nlm.nih.gov/gene/60468	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000046	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	BMF	http://www.ncbi.nlm.nih.gov/gene/90427	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000047	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	BRD4	http://www.ncbi.nlm.nih.gov/gene/23476	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000048	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	C11orf54	http://www.ncbi.nlm.nih.gov/gene/28970	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000049	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	C1orf96	http://www.ncbi.nlm.nih.gov/gene/126731	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000050	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	C2orf63	http://www.ncbi.nlm.nih.gov/gene/130162	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000051	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	C2orf72	http://www.ncbi.nlm.nih.gov/gene/257407	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000052	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	C4orf32	http://www.ncbi.nlm.nih.gov/gene/132720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000053	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	C7orf60	http://www.ncbi.nlm.nih.gov/gene/154743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000054	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	CALM3	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000055	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	CAV2	http://www.ncbi.nlm.nih.gov/gene/858	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000056	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	CBX6	http://www.ncbi.nlm.nih.gov/gene/23466	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000057	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000058	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	CLEC2D	http://www.ncbi.nlm.nih.gov/gene/29121	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000059	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	COL4A5	http://www.ncbi.nlm.nih.gov/gene/1287	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000060	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	COMMD2	http://www.ncbi.nlm.nih.gov/gene/51122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000061	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	CSRNP2	http://www.ncbi.nlm.nih.gov/gene/81566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000062	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	DCP2	http://www.ncbi.nlm.nih.gov/gene/167227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000063	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	DDI2	http://www.ncbi.nlm.nih.gov/gene/84301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000064	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	DGKD	http://www.ncbi.nlm.nih.gov/gene/8527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000065	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	DLD	http://www.ncbi.nlm.nih.gov/gene/1738	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000066	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	DVL3	http://www.ncbi.nlm.nih.gov/gene/1857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000067	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	ERCC6	http://www.ncbi.nlm.nih.gov/gene/2074	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000068	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	FAM105B	http://www.ncbi.nlm.nih.gov/gene/90268	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000069	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	FAM136A	http://www.ncbi.nlm.nih.gov/gene/84908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000070	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	FAM76B	http://www.ncbi.nlm.nih.gov/gene/143684	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000071	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	FEM1B	http://www.ncbi.nlm.nih.gov/gene/10116	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000072	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	FER	http://www.ncbi.nlm.nih.gov/gene/2241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000073	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	FOXJ2	http://www.ncbi.nlm.nih.gov/gene/55810	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000074	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	FRAT2	http://www.ncbi.nlm.nih.gov/gene/23401	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000075	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	GAPVD1	http://www.ncbi.nlm.nih.gov/gene/26130	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000076	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	GPATCH2	http://www.ncbi.nlm.nih.gov/gene/55105	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000077	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	HBP1	http://www.ncbi.nlm.nih.gov/gene/26959	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000078	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	HINT3	http://www.ncbi.nlm.nih.gov/gene/135114	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000079	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	HSPG2	http://www.ncbi.nlm.nih.gov/gene/3339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000080	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	ING3	http://www.ncbi.nlm.nih.gov/gene/54556	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000081	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	IREB2	http://www.ncbi.nlm.nih.gov/gene/3658	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000082	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	ISG20L2	http://www.ncbi.nlm.nih.gov/gene/81875	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000083	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	KCTD5	http://www.ncbi.nlm.nih.gov/gene/54442	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000084	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	KIAA0895	http://www.ncbi.nlm.nih.gov/gene/23366	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000085	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	KIAA1432	http://www.ncbi.nlm.nih.gov/gene/57589	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000086	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	KIAA1549	http://www.ncbi.nlm.nih.gov/gene/57670	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000087	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	LIMA1	http://www.ncbi.nlm.nih.gov/gene/51474	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000088	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	LMNB1	http://www.ncbi.nlm.nih.gov/gene/4001	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000089	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	LYSMD1	http://www.ncbi.nlm.nih.gov/gene/388695	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000090	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	MARK3	http://www.ncbi.nlm.nih.gov/gene/4140	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000091	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	MCL1	http://www.ncbi.nlm.nih.gov/gene/4170	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000092	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	MDM2	http://www.ncbi.nlm.nih.gov/gene/4193	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000093	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	MMADHC	http://www.ncbi.nlm.nih.gov/gene/27249	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000094	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	NSD1	http://www.ncbi.nlm.nih.gov/gene/64324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000095	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	OAS2	http://www.ncbi.nlm.nih.gov/gene/4939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000096	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	PAPOLG	http://www.ncbi.nlm.nih.gov/gene/64895	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000097	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	PDIK1L	http://www.ncbi.nlm.nih.gov/gene/149420	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000098	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	PI15	http://www.ncbi.nlm.nih.gov/gene/51050	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000099	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	PLAG1	http://www.ncbi.nlm.nih.gov/gene/5324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000100	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	RAB11A	http://www.ncbi.nlm.nih.gov/gene/8766	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000101	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	RAB30	http://www.ncbi.nlm.nih.gov/gene/27314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000102	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	RGS1	http://www.ncbi.nlm.nih.gov/gene/5996	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000103	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	RNASEL	http://www.ncbi.nlm.nih.gov/gene/6041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000104	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	RNF19A	http://www.ncbi.nlm.nih.gov/gene/25897	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000105	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	ROBO1	http://www.ncbi.nlm.nih.gov/gene/6091	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000106	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	SETDB1	http://www.ncbi.nlm.nih.gov/gene/9869	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000107	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	SIKE1	http://www.ncbi.nlm.nih.gov/gene/80143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000108	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	SIRT1	http://www.ncbi.nlm.nih.gov/gene/23411	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000109	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	SLC16A14	http://www.ncbi.nlm.nih.gov/gene/151473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000110	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	SLC4A7	http://www.ncbi.nlm.nih.gov/gene/9497	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000111	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	SOX12	http://www.ncbi.nlm.nih.gov/gene/6666	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000112	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	SUV420H2	http://www.ncbi.nlm.nih.gov/gene/84787	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000113	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	TET2	http://www.ncbi.nlm.nih.gov/gene/54790	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000114	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	TET3	http://www.ncbi.nlm.nih.gov/gene/200424	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000115	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	TMEM111	http://www.ncbi.nlm.nih.gov/gene/55831	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000116	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	TMEM25	http://www.ncbi.nlm.nih.gov/gene/84866	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000117	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	TNFAIP3	http://www.ncbi.nlm.nih.gov/gene/7128	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000118	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000119	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	UBXN7	http://www.ncbi.nlm.nih.gov/gene/26043	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000120	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	VEGFA	http://www.ncbi.nlm.nih.gov/gene/7422	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000121	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	WDR41	http://www.ncbi.nlm.nih.gov/gene/55255	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000122	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	WDR75	http://www.ncbi.nlm.nih.gov/gene/84128	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000123	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	WSB2	http://www.ncbi.nlm.nih.gov/gene/55884	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000124	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	ZMYM2	http://www.ncbi.nlm.nih.gov/gene/7750	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000125	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	ZNF28	http://www.ncbi.nlm.nih.gov/gene/7576	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000126	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	ZNF282	http://www.ncbi.nlm.nih.gov/gene/8427	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000127	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	ZNF445	http://www.ncbi.nlm.nih.gov/gene/353274	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000128	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	ZNF498	http://www.ncbi.nlm.nih.gov/gene/221785	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000129	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	BC-1	-	Host	mRNA	ZNF512B	http://www.ncbi.nlm.nih.gov/gene/57473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000130	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	ABCB6	http://www.ncbi.nlm.nih.gov/gene/10058	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000131	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	ABHD13	http://www.ncbi.nlm.nih.gov/gene/84945	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000132	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	ADIPOR2	http://www.ncbi.nlm.nih.gov/gene/79602	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000133	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	AGPAT5	http://www.ncbi.nlm.nih.gov/gene/55326	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000134	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	AKT3	http://www.ncbi.nlm.nih.gov/gene/10000	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000135	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	ALG13	http://www.ncbi.nlm.nih.gov/gene/79868	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000136	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	AMMECR1	http://www.ncbi.nlm.nih.gov/gene/9949	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000137	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	AMMECR1L	http://www.ncbi.nlm.nih.gov/gene/83607	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000138	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	ANKRD28	http://www.ncbi.nlm.nih.gov/gene/23243	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000139	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	ATXN7L3	http://www.ncbi.nlm.nih.gov/gene/56970	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000140	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	BMF	http://www.ncbi.nlm.nih.gov/gene/90427	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000141	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	BRD4	http://www.ncbi.nlm.nih.gov/gene/23476	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000142	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	BRWD3	http://www.ncbi.nlm.nih.gov/gene/254065	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000143	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	BTG2	http://www.ncbi.nlm.nih.gov/gene/7832	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000144	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	C11orf54	http://www.ncbi.nlm.nih.gov/gene/28970	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000145	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	C12orf70	http://www.ncbi.nlm.nih.gov/gene/341346	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000146	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	C12orf76	http://www.ncbi.nlm.nih.gov/gene/400073	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000147	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	C2orf72	http://www.ncbi.nlm.nih.gov/gene/257407	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000148	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	C7orf60	http://www.ncbi.nlm.nih.gov/gene/154743	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000149	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	CALM3	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000150	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	CBX6	http://www.ncbi.nlm.nih.gov/gene/23466	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000151	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000152	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	CCSAP(C1orf96)		-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000153	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	CCT4	http://www.ncbi.nlm.nih.gov/gene/10575	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000154	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	CCT8	http://www.ncbi.nlm.nih.gov/gene/644131	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000155	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	CLEC2D	http://www.ncbi.nlm.nih.gov/gene/29121	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000156	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	COL19A1	http://www.ncbi.nlm.nih.gov/gene/1310	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000157	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	COL1A1	http://www.ncbi.nlm.nih.gov/gene/1277	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000158	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	CXCL10	http://www.ncbi.nlm.nih.gov/gene/3627	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000159	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	DCP2	http://www.ncbi.nlm.nih.gov/gene/167227	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000160	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	DDI2	http://www.ncbi.nlm.nih.gov/gene/84301	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000161	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	DGKD	http://www.ncbi.nlm.nih.gov/gene/8527	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000162	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	DGKH	http://www.ncbi.nlm.nih.gov/gene/160851	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000163	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	DHX36	http://www.ncbi.nlm.nih.gov/gene/170506	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000164	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	DHX8	http://www.ncbi.nlm.nih.gov/gene/1659	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000165	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	DPM1	http://www.ncbi.nlm.nih.gov/gene/8813	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000166	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	DTL	http://www.ncbi.nlm.nih.gov/gene/51514	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000167	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	DVL3	http://www.ncbi.nlm.nih.gov/gene/1857	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000168	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	DYNLT1	http://www.ncbi.nlm.nih.gov/gene/6993	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000169	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	E2F7	http://www.ncbi.nlm.nih.gov/gene/144455	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000170	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	EPC1	http://www.ncbi.nlm.nih.gov/gene/80314	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000171	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	ERCC6	http://www.ncbi.nlm.nih.gov/gene/2074	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000172	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	FAM105B	http://www.ncbi.nlm.nih.gov/gene/90268	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000173	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	FAM76B	http://www.ncbi.nlm.nih.gov/gene/143684	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000174	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	FEM1B	http://www.ncbi.nlm.nih.gov/gene/10116	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000175	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	GAPVD1	http://www.ncbi.nlm.nih.gov/gene/26130	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000176	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	HECTD1	http://www.ncbi.nlm.nih.gov/gene/25831	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000177	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	HIST1H2BG	http://www.ncbi.nlm.nih.gov/gene/8343	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000178	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	IFNAR1	http://www.ncbi.nlm.nih.gov/gene/3454	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000179	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	ISG20L2	http://www.ncbi.nlm.nih.gov/gene/81875	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000180	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	KIAA1432	http://www.ncbi.nlm.nih.gov/gene/57589	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000181	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	LY75	http://www.ncbi.nlm.nih.gov/gene/4065	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000182	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	LYSMD1	http://www.ncbi.nlm.nih.gov/gene/388695	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000183	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	MARK3	http://www.ncbi.nlm.nih.gov/gene/4140	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000184	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	MCL1	http://www.ncbi.nlm.nih.gov/gene/4170	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000185	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	MDM2	http://www.ncbi.nlm.nih.gov/gene/4193	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000186	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	MPZL3	http://www.ncbi.nlm.nih.gov/gene/196264	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000187	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	MSL3	http://www.ncbi.nlm.nih.gov/gene/10943	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000188	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	NCUBE1	http://www.ncbi.nlm.nih.gov/gene/51465	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000189	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	NEDD9	http://www.ncbi.nlm.nih.gov/gene/4739	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000190	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	NKIRAS2	http://www.ncbi.nlm.nih.gov/gene/28511	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000191	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	NSD1	http://www.ncbi.nlm.nih.gov/gene/64324	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000192	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	PGAP2	http://www.ncbi.nlm.nih.gov/gene/27315	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000193	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	PLAG1	http://www.ncbi.nlm.nih.gov/gene/5324	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000194	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	PPAPR3	#	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000195	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	PTP4A1	http://www.ncbi.nlm.nih.gov/gene/7803	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000196	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	RAB30	http://www.ncbi.nlm.nih.gov/gene/27314	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000197	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	RCBTB2	http://www.ncbi.nlm.nih.gov/gene/1102	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000198	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	REV3L	http://www.ncbi.nlm.nih.gov/gene/5980	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000199	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	RGS1	http://www.ncbi.nlm.nih.gov/gene/5996	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000200	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	RLF	http://www.ncbi.nlm.nih.gov/gene/6018	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000201	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	RNF19A	http://www.ncbi.nlm.nih.gov/gene/25897	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000202	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	ROBO1	http://www.ncbi.nlm.nih.gov/gene/6091	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000203	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	SEC24A	http://www.ncbi.nlm.nih.gov/gene/10802	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000204	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	SH3PXD2A	http://www.ncbi.nlm.nih.gov/gene/9644	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000205	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	SLC19A2	http://www.ncbi.nlm.nih.gov/gene/10560	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000206	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	SPARC	http://www.ncbi.nlm.nih.gov/gene/6678	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000207	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	TET3	http://www.ncbi.nlm.nih.gov/gene/200424	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000208	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	TFRC	http://www.ncbi.nlm.nih.gov/gene/7037	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000209	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	TMEM48	http://www.ncbi.nlm.nih.gov/gene/55706	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000210	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	TNFAIP3	http://www.ncbi.nlm.nih.gov/gene/7128	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000211	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	TNRC6B	http://www.ncbi.nlm.nih.gov/gene/23112	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000212	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	TRAM1	http://www.ncbi.nlm.nih.gov/gene/23471	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000213	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	USP10	http://www.ncbi.nlm.nih.gov/gene/9100	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000214	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	WBP1L(C10orf26)		-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000215	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	WDFY1	http://www.ncbi.nlm.nih.gov/gene/57590	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000216	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	WDR41	http://www.ncbi.nlm.nih.gov/gene/55255	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000217	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	ZFP91	http://www.ncbi.nlm.nih.gov/gene/386607	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000218	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	ZMYM2	http://www.ncbi.nlm.nih.gov/gene/7750	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000219	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	ZNF28	http://www.ncbi.nlm.nih.gov/gene/7576	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000220	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	ZNF282	http://www.ncbi.nlm.nih.gov/gene/8427	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000221	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	ZNF292	http://www.ncbi.nlm.nih.gov/gene/23036	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000222	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	ZNF608	http://www.ncbi.nlm.nih.gov/gene/57507	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000223	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(ebv-mir-bart1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	Lymphoblastoid cell lines	-	Host	mRNA	ZSCAN25(ZNF498)		-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000224	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	ACSL3	http://www.ncbi.nlm.nih.gov/gene/2181	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000225	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	AK3	http://www.ncbi.nlm.nih.gov/gene/50808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000226	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	AKAP13	http://www.ncbi.nlm.nih.gov/gene/11214	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000227	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	ALS2CR8	http://www.ncbi.nlm.nih.gov/gene/79800	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000228	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	ATF7	http://www.ncbi.nlm.nih.gov/gene/11016	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000229	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	C9orf156	http://www.ncbi.nlm.nih.gov/gene/51531	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000230	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	CCDC117	http://www.ncbi.nlm.nih.gov/gene/150275	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000231	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000232	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	CD2BP2	http://www.ncbi.nlm.nih.gov/gene/10421	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000233	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	CDK4	http://www.ncbi.nlm.nih.gov/gene/1019	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000234	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	CETN3	http://www.ncbi.nlm.nih.gov/gene/1070	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000235	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	CLEC16A	http://www.ncbi.nlm.nih.gov/gene/23274	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000236	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	CLIP1	http://www.ncbi.nlm.nih.gov/gene/6249	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000237	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	COX16	http://www.ncbi.nlm.nih.gov/gene/51241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000238	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	CPNE3	http://www.ncbi.nlm.nih.gov/gene/8895	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000239	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	CREB1	http://www.ncbi.nlm.nih.gov/gene/1385	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000240	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	CRK	http://www.ncbi.nlm.nih.gov/gene/1398	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000241	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	DICER1	http://www.ncbi.nlm.nih.gov/gene/23405	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000242	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	DNAL1	http://www.ncbi.nlm.nih.gov/gene/83544	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000243	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	DYNC1LI2	http://www.ncbi.nlm.nih.gov/gene/1783	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000244	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	ELF2	http://www.ncbi.nlm.nih.gov/gene/1998	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000245	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	FAM135A	http://www.ncbi.nlm.nih.gov/gene/57579	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000246	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	FMR1	http://www.ncbi.nlm.nih.gov/gene/2332	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000247	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	FNIP2	http://www.ncbi.nlm.nih.gov/gene/57600	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000248	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	GUF1	http://www.ncbi.nlm.nih.gov/gene/60558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000249	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	HERPUD1	http://www.ncbi.nlm.nih.gov/gene/9709	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000250	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	HIBCH	http://www.ncbi.nlm.nih.gov/gene/26275	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000251	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	HNRNPK	http://www.ncbi.nlm.nih.gov/gene/3190	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000252	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	HS3ST3B1	http://www.ncbi.nlm.nih.gov/gene/9953	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000253	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	INO80D	http://www.ncbi.nlm.nih.gov/gene/54891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000254	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	IPO9	http://www.ncbi.nlm.nih.gov/gene/55705	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000255	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	IRF1	http://www.ncbi.nlm.nih.gov/gene/3659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000256	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	IRF9	http://www.ncbi.nlm.nih.gov/gene/10379	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000257	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	KBTBD6	http://www.ncbi.nlm.nih.gov/gene/89890	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000258	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	KIAA1468	http://www.ncbi.nlm.nih.gov/gene/57614	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000259	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	KIF23	http://www.ncbi.nlm.nih.gov/gene/9493	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000260	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	KIF3B	http://www.ncbi.nlm.nih.gov/gene/9371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000261	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	KPNA1	http://www.ncbi.nlm.nih.gov/gene/3836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000262	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	LAPTM4A	http://www.ncbi.nlm.nih.gov/gene/9741	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000263	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	LCP1	http://www.ncbi.nlm.nih.gov/gene/3936	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000264	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	LIMS1	http://www.ncbi.nlm.nih.gov/gene/3987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000265	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	LIN28B	http://www.ncbi.nlm.nih.gov/gene/389421	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000266	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	LNPEP	http://www.ncbi.nlm.nih.gov/gene/4012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000267	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	MAML1	http://www.ncbi.nlm.nih.gov/gene/9794	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000268	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	MCL1	http://www.ncbi.nlm.nih.gov/gene/4170	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000269	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	MIER1	http://www.ncbi.nlm.nih.gov/gene/57708	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000270	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	MKL2	http://www.ncbi.nlm.nih.gov/gene/57496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000271	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	NFAT5	http://www.ncbi.nlm.nih.gov/gene/10725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000272	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	NIN	http://www.ncbi.nlm.nih.gov/gene/51199	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000273	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	NR1D2	http://www.ncbi.nlm.nih.gov/gene/9975	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000274	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	OCRL	http://www.ncbi.nlm.nih.gov/gene/4952	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000275	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	OPA1	http://www.ncbi.nlm.nih.gov/gene/4976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000276	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	PGRMC1	http://www.ncbi.nlm.nih.gov/gene/10857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000277	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	PLCXD2	http://www.ncbi.nlm.nih.gov/gene/90102	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000278	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	PRDM1	http://www.ncbi.nlm.nih.gov/gene/639	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000279	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	PTPN9	http://www.ncbi.nlm.nih.gov/gene/5780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000280	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	PXMP4	http://www.ncbi.nlm.nih.gov/gene/11264	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000281	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	RBM27	http://www.ncbi.nlm.nih.gov/gene/54439	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000282	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	RC3H1	http://www.ncbi.nlm.nih.gov/gene/149041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000283	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	RGL2	http://www.ncbi.nlm.nih.gov/gene/5863	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000284	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	RNF125	http://www.ncbi.nlm.nih.gov/gene/54941	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000285	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	SACS	http://www.ncbi.nlm.nih.gov/gene/26278	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000286	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	SH3GL1	http://www.ncbi.nlm.nih.gov/gene/6455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000287	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	SLC39A6	http://www.ncbi.nlm.nih.gov/gene/25800	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000288	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	SLC39A9	http://www.ncbi.nlm.nih.gov/gene/55334	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000289	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	SNX10	http://www.ncbi.nlm.nih.gov/gene/29887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000290	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	SP100	http://www.ncbi.nlm.nih.gov/gene/6672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000291	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	STX12	http://www.ncbi.nlm.nih.gov/gene/23673	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000292	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	SYPL1	http://www.ncbi.nlm.nih.gov/gene/6856	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000293	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	TBC1D20	http://www.ncbi.nlm.nih.gov/gene/128637	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000294	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	TFRC	http://www.ncbi.nlm.nih.gov/gene/7037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000295	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	TRIM24	http://www.ncbi.nlm.nih.gov/gene/8805	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000296	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	UBE2CBP	http://www.ncbi.nlm.nih.gov/gene/90025	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000297	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	UBN2	http://www.ncbi.nlm.nih.gov/gene/254048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000298	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	UHRF1BP1	http://www.ncbi.nlm.nih.gov/gene/54887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000299	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	XPO4	http://www.ncbi.nlm.nih.gov/gene/64328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000300	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	YOD1	http://www.ncbi.nlm.nih.gov/gene/55432	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000301	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	ZBTB24	http://www.ncbi.nlm.nih.gov/gene/9841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000302	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	ZFP91	http://www.ncbi.nlm.nih.gov/gene/386607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000303	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	BC-1	-	Host	mRNA	ZNF133	http://www.ncbi.nlm.nih.gov/gene/7692	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000304	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	AK3	http://www.ncbi.nlm.nih.gov/gene/50808	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000305	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	AKAP13	http://www.ncbi.nlm.nih.gov/gene/11214	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000306	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	C17orf48	http://www.ncbi.nlm.nih.gov/gene/56985	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000307	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	C2CD2	http://www.ncbi.nlm.nih.gov/gene/25966	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000308	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	C9orf156	http://www.ncbi.nlm.nih.gov/gene/51531	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000309	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	CARF(ALS2CR8)		-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000310	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	CLIP1	http://www.ncbi.nlm.nih.gov/gene/6249	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000311	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	CLUAP1	http://www.ncbi.nlm.nih.gov/gene/23059	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000312	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	CRK	http://www.ncbi.nlm.nih.gov/gene/1398	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000313	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	CSNK1G3	http://www.ncbi.nlm.nih.gov/gene/1456	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000314	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	DRAM1	http://www.ncbi.nlm.nih.gov/gene/55332	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000315	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	DYNC1LI2	http://www.ncbi.nlm.nih.gov/gene/1783	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000316	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	FAM120A	http://www.ncbi.nlm.nih.gov/gene/23196	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000317	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	FMR1	http://www.ncbi.nlm.nih.gov/gene/2332	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000318	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	GRN	http://www.ncbi.nlm.nih.gov/gene/2896	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000319	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	HERPUD1	http://www.ncbi.nlm.nih.gov/gene/9709	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000320	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	HIBCH	http://www.ncbi.nlm.nih.gov/gene/26275	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000321	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	IPO9	http://www.ncbi.nlm.nih.gov/gene/55705	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000322	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	IRF1	http://www.ncbi.nlm.nih.gov/gene/3659	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000323	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	LNPEP	http://www.ncbi.nlm.nih.gov/gene/4012	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000324	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	LY75	http://www.ncbi.nlm.nih.gov/gene/4065	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000325	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	MIER1	http://www.ncbi.nlm.nih.gov/gene/57708	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000326	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	MKL2	http://www.ncbi.nlm.nih.gov/gene/57496	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000327	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	NFAT5	http://www.ncbi.nlm.nih.gov/gene/10725	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000328	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	OPA1	http://www.ncbi.nlm.nih.gov/gene/4976	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000329	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	PCNA	http://www.ncbi.nlm.nih.gov/gene/5111	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000330	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	PDCD1LG2	http://www.ncbi.nlm.nih.gov/gene/80380	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000331	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	PHF17	http://www.ncbi.nlm.nih.gov/gene/79960	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000332	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	PIK3R1	http://www.ncbi.nlm.nih.gov/gene/5295	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000333	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	PRDM1	http://www.ncbi.nlm.nih.gov/gene/639	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000334	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	RBM27	http://www.ncbi.nlm.nih.gov/gene/54439	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000335	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	SARM1	http://www.ncbi.nlm.nih.gov/gene/23098	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000336	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	SH3GL1	http://www.ncbi.nlm.nih.gov/gene/6455	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000337	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	SIK2	http://www.ncbi.nlm.nih.gov/gene/23235	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000338	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	SLK	http://www.ncbi.nlm.nih.gov/gene/9748	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000339	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	SMARCB1	http://www.ncbi.nlm.nih.gov/gene/6598	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000340	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	SNX10	http://www.ncbi.nlm.nih.gov/gene/29887	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000341	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	SP100	http://www.ncbi.nlm.nih.gov/gene/6672	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000342	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	SRRM2	http://www.ncbi.nlm.nih.gov/gene/100132779	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000343	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	STX12	http://www.ncbi.nlm.nih.gov/gene/23673	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000344	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	SUOX	http://www.ncbi.nlm.nih.gov/gene/6821	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000345	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	TRAF4	http://www.ncbi.nlm.nih.gov/gene/9618	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00000346	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	UBN2	http://www.ncbi.nlm.nih.gov/gene/254048	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000347	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	WARS	http://www.ncbi.nlm.nih.gov/gene/7453	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000348	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	XPO6	http://www.ncbi.nlm.nih.gov/gene/23214	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000349	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	YOD1	http://www.ncbi.nlm.nih.gov/gene/55432	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000350	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	ZNF148	http://www.ncbi.nlm.nih.gov/gene/7707	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000351	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(ebv-mir-bart1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	Lymphoblastoid cell lines	-	Host	mRNA	ZNF555	http://www.ncbi.nlm.nih.gov/gene/148254	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00000352	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	ACSL4	http://www.ncbi.nlm.nih.gov/gene/2182	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000353	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	ADSS	http://www.ncbi.nlm.nih.gov/gene/159	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000354	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	ANKRD11	http://www.ncbi.nlm.nih.gov/gene/100128265	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000355	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	AP1S3	http://www.ncbi.nlm.nih.gov/gene/130340	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000356	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	ARL2BP	http://www.ncbi.nlm.nih.gov/gene/23568	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000357	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	ARMC8	http://www.ncbi.nlm.nih.gov/gene/25852	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000358	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	ATG5	http://www.ncbi.nlm.nih.gov/gene/9474	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000359	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	BTBD1	http://www.ncbi.nlm.nih.gov/gene/53339	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000360	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	C17orf63	http://www.ncbi.nlm.nih.gov/gene/55731	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000361	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	CBX5	http://www.ncbi.nlm.nih.gov/gene/23468	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000362	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	CCDC21	http://www.ncbi.nlm.nih.gov/gene/64793	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000363	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000364	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	CDC42	http://www.ncbi.nlm.nih.gov/gene/998	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000365	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	CLCC1	http://www.ncbi.nlm.nih.gov/gene/23155	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000366	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	CLINT1	http://www.ncbi.nlm.nih.gov/gene/9685	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000367	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	CMTM6	http://www.ncbi.nlm.nih.gov/gene/54918	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000368	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	CPEB2	http://www.ncbi.nlm.nih.gov/gene/132864	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000369	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	CPEB3	http://www.ncbi.nlm.nih.gov/gene/22849	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000370	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	CPEB4	http://www.ncbi.nlm.nih.gov/gene/80315	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000371	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	CROT	http://www.ncbi.nlm.nih.gov/gene/54677	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000372	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	CUGBP2	http://www.ncbi.nlm.nih.gov/gene/10659 	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000373	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	DDX3Y	http://www.ncbi.nlm.nih.gov/gene/8653	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000374	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	FAM120A	http://www.ncbi.nlm.nih.gov/gene/23196	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000375	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	FBXW7	http://www.ncbi.nlm.nih.gov/gene/55294	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000376	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	GEMIN4	http://www.ncbi.nlm.nih.gov/gene/50628	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000377	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	HECW2	http://www.ncbi.nlm.nih.gov/gene/57520	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000378	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	IDS	http://www.ncbi.nlm.nih.gov/gene/3423	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000379	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	IREB2	http://www.ncbi.nlm.nih.gov/gene/3658	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000380	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	MEX3C	http://www.ncbi.nlm.nih.gov/gene/51320	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000381	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	MLL	http://www.ncbi.nlm.nih.gov/gene/4297	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000382	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	MORC3	http://www.ncbi.nlm.nih.gov/gene/23515	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000383	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	MREG	http://www.ncbi.nlm.nih.gov/gene/55686	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000384	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	NCOA3	http://www.ncbi.nlm.nih.gov/gene/8202	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000385	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	NOM1	http://www.ncbi.nlm.nih.gov/gene/64434	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000386	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	NUP133	http://www.ncbi.nlm.nih.gov/gene/55746	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000387	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	NUP43	http://www.ncbi.nlm.nih.gov/gene/348995	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000388	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	PAFAH1B1	http://www.ncbi.nlm.nih.gov/gene/5048	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000389	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	PER2	http://www.ncbi.nlm.nih.gov/gene/8864	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000390	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	PPP6C	http://www.ncbi.nlm.nih.gov/gene/5537	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000391	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	RASGRP3	http://www.ncbi.nlm.nih.gov/gene/25780	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000392	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	RBBP6	http://www.ncbi.nlm.nih.gov/gene/5930	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000393	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	RBM26	http://www.ncbi.nlm.nih.gov/gene/64062	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000394	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	RNF213	http://www.ncbi.nlm.nih.gov/gene/57674	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000395	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	SAP18	http://www.ncbi.nlm.nih.gov/gene/10284	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000396	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	SEL1L	http://www.ncbi.nlm.nih.gov/gene/6400	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000397	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	SMCHD1	http://www.ncbi.nlm.nih.gov/gene/23347	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000398	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	SPTLC2	http://www.ncbi.nlm.nih.gov/gene/9517	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000399	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	STARD7	http://www.ncbi.nlm.nih.gov/gene/56910	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000400	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	SUMO3	http://www.ncbi.nlm.nih.gov/gene/285829	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000401	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	TFRC	http://www.ncbi.nlm.nih.gov/gene/7037	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000402	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	TNFRSF10B	http://www.ncbi.nlm.nih.gov/gene/8795	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000403	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	TOP2A	http://www.ncbi.nlm.nih.gov/gene/7153	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000404	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	UBR5	http://www.ncbi.nlm.nih.gov/gene/730429	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000405	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	VPS36	http://www.ncbi.nlm.nih.gov/gene/51028	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000406	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	XIAP	http://www.ncbi.nlm.nih.gov/gene/331	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000407	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	ZNF180	http://www.ncbi.nlm.nih.gov/gene/7733	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000408	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	ZNF217	http://www.ncbi.nlm.nih.gov/gene/7764	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000409	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	Jijoye cells	-	Host	mRNA	ZNF770	http://www.ncbi.nlm.nih.gov/gene/54989	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000410	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10-5p(ebv-mir-bart10*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004817	BC-1	-	Host	mRNA	BRPF3	http://www.ncbi.nlm.nih.gov/gene/27154	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000411	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10-5p(ebv-mir-bart10*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004817	BC-1	-	Host	mRNA	C6orf106	http://www.ncbi.nlm.nih.gov/gene/64771	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000412	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10-5p(ebv-mir-bart10*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004817	BC-1	-	Host	mRNA	FAM126A	http://www.ncbi.nlm.nih.gov/gene/84668	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000413	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10-5p(ebv-mir-bart10*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004817	BC-1	-	Host	mRNA	KLHDC5	http://www.ncbi.nlm.nih.gov/gene/57542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000414	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10-5p(ebv-mir-bart10*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004817	BC-1	-	Host	mRNA	MDM2	http://www.ncbi.nlm.nih.gov/gene/4193	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000415	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10-5p(ebv-mir-bart10*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004817	BC-1	-	Host	mRNA	SIRT3	http://www.ncbi.nlm.nih.gov/gene/23410	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000416	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART10-5p(ebv-mir-bart10*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004817	BC-1	-	Host	mRNA	SR140	http://www.ncbi.nlm.nih.gov/gene/23350	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000417	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-3p(ebv-mir-bart11-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003422	BC-1	-	Host	mRNA	PPP1R8	http://www.ncbi.nlm.nih.gov/gene/5511	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000418	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-3p(ebv-mir-bart11-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003422	BC-1	-	Host	mRNA	SETD7	http://www.ncbi.nlm.nih.gov/gene/80854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000419	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	ATG4A	http://www.ncbi.nlm.nih.gov/gene/115201	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000420	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	BTG2	http://www.ncbi.nlm.nih.gov/gene/7832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000421	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	CD200R1	http://www.ncbi.nlm.nih.gov/gene/131450	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000422	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	EPDR1	http://www.ncbi.nlm.nih.gov/gene/54749	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000423	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	FAM82A2	http://www.ncbi.nlm.nih.gov/gene/55177	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000424	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	FBXL20	http://www.ncbi.nlm.nih.gov/gene/84961	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000425	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	FOXP2	http://www.ncbi.nlm.nih.gov/gene/93986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000426	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	GNB1	http://www.ncbi.nlm.nih.gov/gene/2782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000427	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	HN1	http://www.ncbi.nlm.nih.gov/gene/51155	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000428	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	KHDRBS3	http://www.ncbi.nlm.nih.gov/gene/10656	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000429	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	KIAA0317	http://www.ncbi.nlm.nih.gov/gene/9870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000430	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	KIAA1219	http://www.ncbi.nlm.nih.gov/gene/57148 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000431	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	KLF13	http://www.ncbi.nlm.nih.gov/gene/51621	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000432	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	MCL1	http://www.ncbi.nlm.nih.gov/gene/4170	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000433	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	MDM2	http://www.ncbi.nlm.nih.gov/gene/4193	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000434	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	MID1IP1	http://www.ncbi.nlm.nih.gov/gene/58526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000435	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	NPC1	http://www.ncbi.nlm.nih.gov/gene/4864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000436	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	NRAS	http://www.ncbi.nlm.nih.gov/gene/4893	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000437	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	NSUN6	http://www.ncbi.nlm.nih.gov/gene/221078	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000438	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	OAS2	http://www.ncbi.nlm.nih.gov/gene/4939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000439	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	PAFAH1B1	http://www.ncbi.nlm.nih.gov/gene/5048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000440	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	PHF23	http://www.ncbi.nlm.nih.gov/gene/79142	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000441	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	PHKB	http://www.ncbi.nlm.nih.gov/gene/5257	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000442	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	PTPLAD1	http://www.ncbi.nlm.nih.gov/gene/51495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000443	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	RC3H2	http://www.ncbi.nlm.nih.gov/gene/54542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000444	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	RNMT	http://www.ncbi.nlm.nih.gov/gene/8731	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000445	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	SESN2	http://www.ncbi.nlm.nih.gov/gene/83667	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000446	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	TRAM2	http://www.ncbi.nlm.nih.gov/gene/9697	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000447	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	TRIB1	http://www.ncbi.nlm.nih.gov/gene/10221	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000448	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	WASL	http://www.ncbi.nlm.nih.gov/gene/8976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000449	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART11-5p(ebv-mir-bart11-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003421	BC-1	-	Host	mRNA	XIAP	http://www.ncbi.nlm.nih.gov/gene/331	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000450	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART12(miR-BART12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	epithelial cell lines	-	Host	Protein	BCL2L11(BimEL)	http://www.ncbi.nlm.nih.gov/gene/396632	Downregulation	Northern Blot analysis and quantitative RT-PCR, Western Blot analysis, Microarray analysis, ciferase Assays.	21333317	Analysis of the BimEL protein levels in cells expressing the miRNAs revealed that its expression was affected by several of the individual miRNAs with cell lines expressing miR-BART1, 3, 9, 11 and 12 all having decreased BimEL levels (Figure 6B and C).
VHID00000451	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART12(miR-BART12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	epithelial cell lines	-	Host	mRNA	BCL2L11(BIM)	http://www.ncbi.nlm.nih.gov/gene/396632	Downregulation	Northern Blot analysis and quantitative RT-PCR, Western Blot analysis, Microarray analysis, ciferase Assays.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00000452	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	ABI2	http://www.ncbi.nlm.nih.gov/gene/10152	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000453	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	ARFGEF2	http://www.ncbi.nlm.nih.gov/gene/10564	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000454	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	ATP13A3	http://www.ncbi.nlm.nih.gov/gene/79572	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000455	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	C1orf55	http://www.ncbi.nlm.nih.gov/gene/163859	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000456	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	C6orf120	http://www.ncbi.nlm.nih.gov/gene/387263	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000457	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	C9orf72	http://www.ncbi.nlm.nih.gov/gene/203228	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000458	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	CBL	http://www.ncbi.nlm.nih.gov/gene/867	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000459	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	CCDC99	http://www.ncbi.nlm.nih.gov/gene/54908	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000460	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	CSNK1G1	http://www.ncbi.nlm.nih.gov/gene/53944	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000461	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	CTPS	http://www.ncbi.nlm.nih.gov/gene/1503	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000462	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	EIF5	http://www.ncbi.nlm.nih.gov/gene/1983	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000463	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	FAM174A	http://www.ncbi.nlm.nih.gov/gene/345757	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000464	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	HK2	http://www.ncbi.nlm.nih.gov/gene/3099	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000465	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	INTS6	http://www.ncbi.nlm.nih.gov/gene/26512	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000466	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	LAMP2	http://www.ncbi.nlm.nih.gov/gene/3920	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000467	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	LHFPL2	http://www.ncbi.nlm.nih.gov/gene/10184	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000468	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	MAP3K1	http://www.ncbi.nlm.nih.gov/gene/4214	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000469	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	MAST3	http://www.ncbi.nlm.nih.gov/gene/23031	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000470	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	MCL1	http://www.ncbi.nlm.nih.gov/gene/4170	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000471	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	MED9	http://www.ncbi.nlm.nih.gov/gene/55090	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000472	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	MKLN1	http://www.ncbi.nlm.nih.gov/gene/4289	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000473	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	NDUFB2	http://www.ncbi.nlm.nih.gov/gene/4708	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000474	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	NKIRAS2	http://www.ncbi.nlm.nih.gov/gene/28511	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000475	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	NUCKS1	http://www.ncbi.nlm.nih.gov/gene/64710	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000476	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000477	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	PPM1A	http://www.ncbi.nlm.nih.gov/gene/5494	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000478	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	SC5DL	http://www.ncbi.nlm.nih.gov/gene/6309	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000479	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	SCOC	http://www.ncbi.nlm.nih.gov/gene/60592	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000480	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	SFRS18	http://www.ncbi.nlm.nih.gov/gene/25957	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000481	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	SLC41A1	http://www.ncbi.nlm.nih.gov/gene/254428	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000482	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	TBC1D2B	http://www.ncbi.nlm.nih.gov/gene/23102	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000483	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	TET3	http://www.ncbi.nlm.nih.gov/gene/200424	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000484	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	THUMPD1	http://www.ncbi.nlm.nih.gov/gene/55623	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000485	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	TIAL1	http://www.ncbi.nlm.nih.gov/gene/7073	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000486	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	TMEM60	http://www.ncbi.nlm.nih.gov/gene/85025	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000487	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	TOPBP1	http://www.ncbi.nlm.nih.gov/gene/11073	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000488	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	USP31	http://www.ncbi.nlm.nih.gov/gene/57478	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000489	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	Jijoye cells	-	Host	mRNA	ZFR	http://www.ncbi.nlm.nih.gov/gene/51663	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00000490	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13-3p(BART-13-3P)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003424	-	-	Host	Protein	CAPRIN2	http://www.ncbi.nlm.nih.gov/gene/65981	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00000491	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13-5p(ebv-mir-bart13*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004818	BC-1	-	Host	mRNA	FZD1	http://www.ncbi.nlm.nih.gov/gene/8321	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000492	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13-5p(ebv-mir-bart13*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004818	BC-1	-	Host	mRNA	KPNA5	http://www.ncbi.nlm.nih.gov/gene/3841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000493	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13-5p(ebv-mir-bart13*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004818	BC-1	-	Host	mRNA	RC3H2	http://www.ncbi.nlm.nih.gov/gene/54542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000494	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13-5p(ebv-mir-bart13*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004818	BC-1	-	Host	mRNA	TST	http://www.ncbi.nlm.nih.gov/gene/7263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000495	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART13-5p(ebv-mir-bart13*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004818	BC-1	-	Host	mRNA	VAMP4	http://www.ncbi.nlm.nih.gov/gene/8674	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000496	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	ARID3A	http://www.ncbi.nlm.nih.gov/gene/1820	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000497	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	B2M	http://www.ncbi.nlm.nih.gov/gene/567	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000498	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	C1orf52	http://www.ncbi.nlm.nih.gov/gene/148423	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000499	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	C7orf36	http://www.ncbi.nlm.nih.gov/gene/57002	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000500	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	CREBZF	http://www.ncbi.nlm.nih.gov/gene/58487	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000501	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	CTSC	http://www.ncbi.nlm.nih.gov/gene/1075	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000502	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	DCC	http://www.ncbi.nlm.nih.gov/gene/1630	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000503	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	FBXO33	http://www.ncbi.nlm.nih.gov/gene/254170	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000504	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	G3BP1	http://www.ncbi.nlm.nih.gov/gene/10146	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000505	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	H2AFX	http://www.ncbi.nlm.nih.gov/gene/3014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000506	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	MFSD8	http://www.ncbi.nlm.nih.gov/gene/256471	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000507	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	PRKAR1A	http://www.ncbi.nlm.nih.gov/gene/5573	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000508	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	PTEN	http://www.ncbi.nlm.nih.gov/gene/11191	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000509	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	SFRS6	http://www.ncbi.nlm.nih.gov/gene/644422	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000510	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	TMEM184C	http://www.ncbi.nlm.nih.gov/gene/55751	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000511	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	VMA21	http://www.ncbi.nlm.nih.gov/gene/203547	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000512	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART14-5p(ebv-mir-bart14*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003425	BC-1	-	Host	mRNA	WTAP	http://www.ncbi.nlm.nih.gov/gene/9589	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000513	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART15(miR-BART15-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003713	EBV-negative cells	Upregulation	Host	mRNA	BIRC6(BRUCE)	http://www.ncbi.nlm.nih.gov/gene/57448	Downregulation	Luciferase assays.	23678170	miR-BART15-3p downregulated the BRUCE protein in EBV-negative cells, while the inhibitor for miR-BART15-3p upregulated the BRUCE protein in EBV-infected cells without affecting the BRUCE mRNA level.
VHID00000514	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART16	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	human B cells	-	Host	Protein	TOMM22	http://www.ncbi.nlm.nih.gov/gene/56993	Downregulation	Luciferase assays, RISC immunoprecipitation assay.TaqMan PCR.RIP-Chip analysis.	20413099	Luciferase assays with sensor vectors carrying the 3'UTRs of TOMM22 and IPO7 demonstrated significant repression by ebv-miR-BART16 and ebv-miR-BART3, respectively.
VHID00000515	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	ACTR3	http://www.ncbi.nlm.nih.gov/gene/10096	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000516	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	ADAR	http://www.ncbi.nlm.nih.gov/gene/103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000517	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	AMMECR1	http://www.ncbi.nlm.nih.gov/gene/9949	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000518	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	APOL6	http://www.ncbi.nlm.nih.gov/gene/80830	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000519	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	ARL15	http://www.ncbi.nlm.nih.gov/gene/54622	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000520	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	ARL6IP1	http://www.ncbi.nlm.nih.gov/gene/23204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000521	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	ASH1L	http://www.ncbi.nlm.nih.gov/gene/55870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000522	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	ATP13A3	http://www.ncbi.nlm.nih.gov/gene/79572	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000523	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	ATXN1	http://www.ncbi.nlm.nih.gov/gene/6310	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000524	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	BCL11A	http://www.ncbi.nlm.nih.gov/gene/53335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000525	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	C10orf28	http://www.ncbi.nlm.nih.gov/gene/27291	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000526	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	C1orf58	http://www.ncbi.nlm.nih.gov/gene/148362	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000527	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	C1orf96	http://www.ncbi.nlm.nih.gov/gene/126731	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000528	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	C3orf1	http://www.ncbi.nlm.nih.gov/gene/51300	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000529	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	C4orf32	http://www.ncbi.nlm.nih.gov/gene/132720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000530	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	CALCOCO1	http://www.ncbi.nlm.nih.gov/gene/57658	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000531	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	CAST	http://www.ncbi.nlm.nih.gov/gene/831	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000532	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	CDKN2AIP	http://www.ncbi.nlm.nih.gov/gene/55602	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000533	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	CHD7	http://www.ncbi.nlm.nih.gov/gene/55636	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000534	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	CNOT6L	http://www.ncbi.nlm.nih.gov/gene/246175	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000535	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	DDHD1	http://www.ncbi.nlm.nih.gov/gene/80821	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000536	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	DNAJC27	http://www.ncbi.nlm.nih.gov/gene/51277	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000537	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	EEF2K	http://www.ncbi.nlm.nih.gov/gene/29904	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000538	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	EPC1	http://www.ncbi.nlm.nih.gov/gene/80314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000539	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	FAM133A	http://www.ncbi.nlm.nih.gov/gene/286499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000540	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	FAM76A	http://www.ncbi.nlm.nih.gov/gene/199870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000541	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	FBXO28	http://www.ncbi.nlm.nih.gov/gene/23219	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000542	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	FLI1	http://www.ncbi.nlm.nih.gov/gene/2313	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000543	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	FMR1	http://www.ncbi.nlm.nih.gov/gene/2332	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000544	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	FNDC3B	http://www.ncbi.nlm.nih.gov/gene/64778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000545	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	FNIP1	http://www.ncbi.nlm.nih.gov/gene/96459	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000546	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	FUBP1	http://www.ncbi.nlm.nih.gov/gene/8880	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000547	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	GALNT5	http://www.ncbi.nlm.nih.gov/gene/11227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000548	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	GNPTAB	http://www.ncbi.nlm.nih.gov/gene/79158	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000549	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	HSPA9	http://www.ncbi.nlm.nih.gov/gene/3313	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000550	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	IGF1R	http://www.ncbi.nlm.nih.gov/gene/3480	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000551	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	ISCA1	http://www.ncbi.nlm.nih.gov/gene/81689	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000552	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	KIAA1211	http://www.ncbi.nlm.nih.gov/gene/57482	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000553	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	KLHL15	http://www.ncbi.nlm.nih.gov/gene/80311	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000554	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	KRAS	http://www.ncbi.nlm.nih.gov/gene/3845	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000555	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	LRRC58	http://www.ncbi.nlm.nih.gov/gene/116064	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000556	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	MIER1	http://www.ncbi.nlm.nih.gov/gene/57708	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000557	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	MN1	http://www.ncbi.nlm.nih.gov/gene/4330	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000558	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	NBR1	http://www.ncbi.nlm.nih.gov/gene/4077	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000559	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	NIPA1	http://www.ncbi.nlm.nih.gov/gene/123606	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000560	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	NUCKS1	http://www.ncbi.nlm.nih.gov/gene/64710	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000561	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	PCBP2	http://www.ncbi.nlm.nih.gov/gene/5094	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000562	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	POLI	http://www.ncbi.nlm.nih.gov/gene/11201	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000563	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000564	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	PPAP2B	http://www.ncbi.nlm.nih.gov/gene/8613	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000565	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	PUM2	http://www.ncbi.nlm.nih.gov/gene/23369	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000566	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	RBM12	http://www.ncbi.nlm.nih.gov/gene/10137	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000567	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	RBM12B	http://www.ncbi.nlm.nih.gov/gene/389677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000568	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	RNF125	http://www.ncbi.nlm.nih.gov/gene/54941	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000569	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	RPRD2	http://www.ncbi.nlm.nih.gov/gene/23248	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000570	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	RSRC1	http://www.ncbi.nlm.nih.gov/gene/51319	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000571	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	SACM1L	http://www.ncbi.nlm.nih.gov/gene/22908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000572	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	SENP5	http://www.ncbi.nlm.nih.gov/gene/205564	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000573	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	SETD8	http://www.ncbi.nlm.nih.gov/gene/387893	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000574	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	SLC19A2	http://www.ncbi.nlm.nih.gov/gene/10560	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000575	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	SMEK1	http://www.ncbi.nlm.nih.gov/gene/55671	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000576	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	SMG1	http://www.ncbi.nlm.nih.gov/gene/23049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000577	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	SNTB2	http://www.ncbi.nlm.nih.gov/gene/6645	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000578	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	SPAST	http://www.ncbi.nlm.nih.gov/gene/6683	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000579	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	SPOPL	http://www.ncbi.nlm.nih.gov/gene/339745	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000580	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	SRP14	http://www.ncbi.nlm.nih.gov/gene/390284	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000581	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	TGFBR3	http://www.ncbi.nlm.nih.gov/gene/7049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000582	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	TRAF3IP1	http://www.ncbi.nlm.nih.gov/gene/26146	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000583	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	TSN	http://www.ncbi.nlm.nih.gov/gene/7247	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000584	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	TWISTNB	http://www.ncbi.nlm.nih.gov/gene/221830	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000585	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	UBA6	http://www.ncbi.nlm.nih.gov/gene/55236	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000586	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	UGT8	http://www.ncbi.nlm.nih.gov/gene/7368	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000587	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	USP15	http://www.ncbi.nlm.nih.gov/gene/9958	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000588	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	WASF1	http://www.ncbi.nlm.nih.gov/gene/8936	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000589	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	WDR12	http://www.ncbi.nlm.nih.gov/gene/55759	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000590	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	ZNF226	http://www.ncbi.nlm.nih.gov/gene/7769	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000591	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	ZNF451	http://www.ncbi.nlm.nih.gov/gene/26036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000592	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	ZNF507	http://www.ncbi.nlm.nih.gov/gene/22847	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000593	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	ZNF627	http://www.ncbi.nlm.nih.gov/gene/199692	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000594	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(ebv-mir-bart17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	BC-1	-	Host	mRNA	ZNF681	http://www.ncbi.nlm.nih.gov/gene/148213	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000595	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	AASDHPPT	http://www.ncbi.nlm.nih.gov/gene/60496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000596	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ABL2	http://www.ncbi.nlm.nih.gov/gene/27	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000597	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ADAR	http://www.ncbi.nlm.nih.gov/gene/103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000598	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	AMD1	http://www.ncbi.nlm.nih.gov/gene/262	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000599	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	AMMECR1L	http://www.ncbi.nlm.nih.gov/gene/83607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000600	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	AP1G1	http://www.ncbi.nlm.nih.gov/gene/164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000601	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	APC	http://www.ncbi.nlm.nih.gov/gene/324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000602	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ARF1	http://www.ncbi.nlm.nih.gov/gene/375	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000603	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ARID1A	http://www.ncbi.nlm.nih.gov/gene/8289	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000604	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ARID4B	http://www.ncbi.nlm.nih.gov/gene/51742	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000605	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ARL4C	http://www.ncbi.nlm.nih.gov/gene/10123	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000606	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ARL6IP1	http://www.ncbi.nlm.nih.gov/gene/23204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000607	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ASCC2	http://www.ncbi.nlm.nih.gov/gene/84164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000608	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ATF2	http://www.ncbi.nlm.nih.gov/gene/1386	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000609	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ATF7IP	http://www.ncbi.nlm.nih.gov/gene/55729	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000610	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ATXN10	http://www.ncbi.nlm.nih.gov/gene/25814	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000611	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	BAP1	http://www.ncbi.nlm.nih.gov/gene/8314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000612	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	BRCA1	http://www.ncbi.nlm.nih.gov/gene/672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000613	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	BRMS1L	http://www.ncbi.nlm.nih.gov/gene/84312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000614	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	BRPF3	http://www.ncbi.nlm.nih.gov/gene/27154	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000615	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	BUB3	http://www.ncbi.nlm.nih.gov/gene/9184	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000616	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	C11orf57	http://www.ncbi.nlm.nih.gov/gene/55216	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000617	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	C14orf1	http://www.ncbi.nlm.nih.gov/gene/11161	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000618	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	C1orf2	http://www.ncbi.nlm.nih.gov/gene/10712 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000619	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	C1orf55	http://www.ncbi.nlm.nih.gov/gene/163859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000620	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	C2orf29	http://www.ncbi.nlm.nih.gov/gene/55571	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000621	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	C2orf49	http://www.ncbi.nlm.nih.gov/gene/79074	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000622	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	C5orf24	http://www.ncbi.nlm.nih.gov/gene/134553	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000623	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	C5orf51	http://www.ncbi.nlm.nih.gov/gene/285636	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000624	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	C7orf64	http://www.ncbi.nlm.nih.gov/gene/84060	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000625	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	C9orf5	http://www.ncbi.nlm.nih.gov/gene/23731	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000626	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	C9orf80	http://www.ncbi.nlm.nih.gov/gene/58493	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000627	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	CBX3	http://www.ncbi.nlm.nih.gov/gene/11335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000628	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	CCND2	http://www.ncbi.nlm.nih.gov/gene/894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000629	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	CCNG2	http://www.ncbi.nlm.nih.gov/gene/901	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000630	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	CD2AP	http://www.ncbi.nlm.nih.gov/gene/23607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000631	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	CERK	http://www.ncbi.nlm.nih.gov/gene/64781	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000632	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	CLDND1	http://www.ncbi.nlm.nih.gov/gene/56650	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000633	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	CLEC2D	http://www.ncbi.nlm.nih.gov/gene/29121	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000634	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	CNBP	http://www.ncbi.nlm.nih.gov/gene/7555	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000635	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	CNOT6	http://www.ncbi.nlm.nih.gov/gene/57472	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000636	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	COPZ1	http://www.ncbi.nlm.nih.gov/gene/22818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000637	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	CPEB4	http://www.ncbi.nlm.nih.gov/gene/80315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000638	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	CSNK1A1	http://www.ncbi.nlm.nih.gov/gene/1452	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000639	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	DDX6	http://www.ncbi.nlm.nih.gov/gene/1656	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000640	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	DICER1	http://www.ncbi.nlm.nih.gov/gene/23405	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000641	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	DMWD	http://www.ncbi.nlm.nih.gov/gene/1762	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000642	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	DVL2	http://www.ncbi.nlm.nih.gov/gene/1856	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000643	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	EIF2AK1	http://www.ncbi.nlm.nih.gov/gene/27102	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000644	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	EMD	http://www.ncbi.nlm.nih.gov/gene/2010	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000645	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ERLIN2	http://www.ncbi.nlm.nih.gov/gene/11160	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000646	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ETNK1	http://www.ncbi.nlm.nih.gov/gene/55500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000647	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	EZH1	http://www.ncbi.nlm.nih.gov/gene/2145	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000648	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	FAM169A	http://www.ncbi.nlm.nih.gov/gene/26049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000649	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	FBXO45	http://www.ncbi.nlm.nih.gov/gene/200933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000650	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	FBXO5	http://www.ncbi.nlm.nih.gov/gene/26271	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000651	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	FTO	http://www.ncbi.nlm.nih.gov/gene/79068	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000652	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	FTSJD1	http://www.ncbi.nlm.nih.gov/gene/55783	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000653	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	GAN	http://www.ncbi.nlm.nih.gov/gene/8139	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000654	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	GEMIN4	http://www.ncbi.nlm.nih.gov/gene/50628	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000655	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	GNAI2	http://www.ncbi.nlm.nih.gov/gene/2771	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000656	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	GNB1	http://www.ncbi.nlm.nih.gov/gene/2782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000657	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	GNPTAB	http://www.ncbi.nlm.nih.gov/gene/79158	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000658	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	GORASP2	http://www.ncbi.nlm.nih.gov/gene/26003	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000659	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	GOSR1	http://www.ncbi.nlm.nih.gov/gene/9527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000660	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	GOT2	http://www.ncbi.nlm.nih.gov/gene/2806	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000661	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	GPN1	http://www.ncbi.nlm.nih.gov/gene/11321	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000662	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	GRB2	http://www.ncbi.nlm.nih.gov/gene/2885	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000663	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	GRPEL2	http://www.ncbi.nlm.nih.gov/gene/134266	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000664	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	GTF2A2	http://www.ncbi.nlm.nih.gov/gene/2958	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000665	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	GTPBP1	http://www.ncbi.nlm.nih.gov/gene/9567	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000666	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	HECTD2	http://www.ncbi.nlm.nih.gov/gene/143279	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000667	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	HIP1	http://www.ncbi.nlm.nih.gov/gene/3092	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000668	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	HNRNPR	http://www.ncbi.nlm.nih.gov/gene/10236	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000669	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	HNRPLL	http://www.ncbi.nlm.nih.gov/gene/92906	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000670	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	HOOK1	http://www.ncbi.nlm.nih.gov/gene/51361	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000671	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	HSPBAP1	http://www.ncbi.nlm.nih.gov/gene/79663	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000672	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	IFT74	http://www.ncbi.nlm.nih.gov/gene/80173	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000673	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	IKBKB	http://www.ncbi.nlm.nih.gov/gene/3551	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000674	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	IL15	http://www.ncbi.nlm.nih.gov/gene/3600	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000675	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	IPMK	http://www.ncbi.nlm.nih.gov/gene/253430	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000676	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	IPO5	http://www.ncbi.nlm.nih.gov/gene/3843	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000677	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	IREB2	http://www.ncbi.nlm.nih.gov/gene/3658	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000678	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	IRF4	http://www.ncbi.nlm.nih.gov/gene/3662	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000679	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	IRF9	http://www.ncbi.nlm.nih.gov/gene/10379	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000680	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ISG20L2	http://www.ncbi.nlm.nih.gov/gene/81875	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000681	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	JMY	http://www.ncbi.nlm.nih.gov/gene/133746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000682	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	KBTBD6	http://www.ncbi.nlm.nih.gov/gene/89890	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000683	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	KDM5C	http://www.ncbi.nlm.nih.gov/gene/8242	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000684	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	KLHL24	http://www.ncbi.nlm.nih.gov/gene/54800	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000685	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	KPNA6	http://www.ncbi.nlm.nih.gov/gene/23633	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000686	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	LAMC1	http://www.ncbi.nlm.nih.gov/gene/3915	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000687	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	LIN52	http://www.ncbi.nlm.nih.gov/gene/91750	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000688	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	MAGT1	http://www.ncbi.nlm.nih.gov/gene/84061	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000689	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	MAZ	http://www.ncbi.nlm.nih.gov/gene/4150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000690	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	MDM4	http://www.ncbi.nlm.nih.gov/gene/4194	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000691	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	MDN1	http://www.ncbi.nlm.nih.gov/gene/23195	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000692	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	MED26	http://www.ncbi.nlm.nih.gov/gene/9441	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000693	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	MFSD9	http://www.ncbi.nlm.nih.gov/gene/84804	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000694	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	MINK1	http://www.ncbi.nlm.nih.gov/gene/50488	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000695	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	MRPL45	http://www.ncbi.nlm.nih.gov/gene/84311	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000696	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	NARS	http://www.ncbi.nlm.nih.gov/gene/4677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000697	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	NCK1	http://www.ncbi.nlm.nih.gov/gene/4690	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000698	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	NCOA4	http://www.ncbi.nlm.nih.gov/gene/8031	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000699	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	NDRG1	http://www.ncbi.nlm.nih.gov/gene/10397	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000700	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	NF2	http://www.ncbi.nlm.nih.gov/gene/4771	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000701	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	NHLRC2	http://www.ncbi.nlm.nih.gov/gene/374354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000702	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	NIPA1	http://www.ncbi.nlm.nih.gov/gene/123606	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000703	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	NOTCH2	http://www.ncbi.nlm.nih.gov/gene/4853	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000704	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	NUCKS1	http://www.ncbi.nlm.nih.gov/gene/64710	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000705	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	NUP155	http://www.ncbi.nlm.nih.gov/gene/9631	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000706	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	NUP160	http://www.ncbi.nlm.nih.gov/gene/23279	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000707	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	NVL	http://www.ncbi.nlm.nih.gov/gene/4931	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000708	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	OTUD6B	http://www.ncbi.nlm.nih.gov/gene/51633	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000709	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	PAICS	http://www.ncbi.nlm.nih.gov/gene/10606	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000710	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	PARP14	http://www.ncbi.nlm.nih.gov/gene/54625	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000711	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	PBXIP1	http://www.ncbi.nlm.nih.gov/gene/57326	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000712	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	PI4KB	http://www.ncbi.nlm.nih.gov/gene/5298	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000713	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	PIKFYVE	http://www.ncbi.nlm.nih.gov/gene/200576	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000714	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	PJA2	http://www.ncbi.nlm.nih.gov/gene/9867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000715	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	PNN	http://www.ncbi.nlm.nih.gov/gene/5411	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000716	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	POGK	http://www.ncbi.nlm.nih.gov/gene/57645	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000717	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	POLE3	http://www.ncbi.nlm.nih.gov/gene/54107	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000718	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	PPP1R12A	http://www.ncbi.nlm.nih.gov/gene/4659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000719	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	PPP1R15B	http://www.ncbi.nlm.nih.gov/gene/84919	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000720	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	PPP2R2A	http://www.ncbi.nlm.nih.gov/gene/5520	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000721	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	PRDM15	http://www.ncbi.nlm.nih.gov/gene/63977	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000722	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	PURB	http://www.ncbi.nlm.nih.gov/gene/5814	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000723	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	PXK	http://www.ncbi.nlm.nih.gov/gene/54899	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000724	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	PYGO2	http://www.ncbi.nlm.nih.gov/gene/90780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000725	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	RAD18	http://www.ncbi.nlm.nih.gov/gene/56852	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000726	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	RBM18	http://www.ncbi.nlm.nih.gov/gene/92400	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000727	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	REPIN1	http://www.ncbi.nlm.nih.gov/gene/29803	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000728	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	REST	http://www.ncbi.nlm.nih.gov/gene/5978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000729	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	RNF168	http://www.ncbi.nlm.nih.gov/gene/165918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000730	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	RPL22	http://www.ncbi.nlm.nih.gov/gene/402100	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000731	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	RPL31	http://www.ncbi.nlm.nih.gov/gene/653773	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000732	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	RRN3	http://www.ncbi.nlm.nih.gov/gene/54700	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000733	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SAMD9	http://www.ncbi.nlm.nih.gov/gene/54809	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000734	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SCYL2	http://www.ncbi.nlm.nih.gov/gene/55681	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000735	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SDF2	http://www.ncbi.nlm.nih.gov/gene/6388	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000736	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SETD8	http://www.ncbi.nlm.nih.gov/gene/387893	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000737	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SF3A3	http://www.ncbi.nlm.nih.gov/gene/10946	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000738	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SGOL1	http://www.ncbi.nlm.nih.gov/gene/151648	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000739	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SH3BGRL	http://www.ncbi.nlm.nih.gov/gene/6451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000740	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SH3GL2	http://www.ncbi.nlm.nih.gov/gene/6456	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000741	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SIDT1	http://www.ncbi.nlm.nih.gov/gene/54847	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000742	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SLC39A14	http://www.ncbi.nlm.nih.gov/gene/23516	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000743	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SLC7A6	http://www.ncbi.nlm.nih.gov/gene/9057	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000744	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SLMAP	http://www.ncbi.nlm.nih.gov/gene/7871	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000745	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SMAD4	http://www.ncbi.nlm.nih.gov/gene/4089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000746	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SMG7	http://www.ncbi.nlm.nih.gov/gene/9887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000747	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SNIP1	http://www.ncbi.nlm.nih.gov/gene/79753	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000748	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SNX12	http://www.ncbi.nlm.nih.gov/gene/29934	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000749	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SNX25	http://www.ncbi.nlm.nih.gov/gene/83891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000750	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SPATA2	http://www.ncbi.nlm.nih.gov/gene/9825	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000751	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SRPK1	http://www.ncbi.nlm.nih.gov/gene/6732	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000752	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	SSR1	http://www.ncbi.nlm.nih.gov/gene/6745	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000753	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	TBC1D20	http://www.ncbi.nlm.nih.gov/gene/128637	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000754	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	TM9SF3	http://www.ncbi.nlm.nih.gov/gene/56889	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000755	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	TMEM194A	http://www.ncbi.nlm.nih.gov/gene/23306	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000756	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	TMEM39A	http://www.ncbi.nlm.nih.gov/gene/55254	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000757	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	TMTC3	http://www.ncbi.nlm.nih.gov/gene/160418	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000758	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	TRIB1	http://www.ncbi.nlm.nih.gov/gene/10221	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000759	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	TRIM24	http://www.ncbi.nlm.nih.gov/gene/8805	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000760	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	TRIP6	http://www.ncbi.nlm.nih.gov/gene/7205	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000761	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	TSPYL5	http://www.ncbi.nlm.nih.gov/gene/85453	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000762	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	TST	http://www.ncbi.nlm.nih.gov/gene/7263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000763	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	TUBB	http://www.ncbi.nlm.nih.gov/gene/647000	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000764	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	UBAC2	http://www.ncbi.nlm.nih.gov/gene/337867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000765	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	UBE2N	http://www.ncbi.nlm.nih.gov/gene/7334	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000766	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	UBFD1	http://www.ncbi.nlm.nih.gov/gene/56061	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000767	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	UHRF2	http://www.ncbi.nlm.nih.gov/gene/115426	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000768	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	USP38	http://www.ncbi.nlm.nih.gov/gene/84640	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000769	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	USP49	http://www.ncbi.nlm.nih.gov/gene/25862	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000770	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	VAMP4	http://www.ncbi.nlm.nih.gov/gene/8674	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000771	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	VAMP8	http://www.ncbi.nlm.nih.gov/gene/8673	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000772	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	VEZT	http://www.ncbi.nlm.nih.gov/gene/55591	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000773	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	VPS37A	http://www.ncbi.nlm.nih.gov/gene/137492	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000774	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	WAC	http://www.ncbi.nlm.nih.gov/gene/51322	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000775	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	WASL	http://www.ncbi.nlm.nih.gov/gene/8976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000776	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	WNK1	http://www.ncbi.nlm.nih.gov/gene/65125	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000777	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	YES1	http://www.ncbi.nlm.nih.gov/gene/7525	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000778	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	YWHAG	http://www.ncbi.nlm.nih.gov/gene/7532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000779	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ZBTB5	http://www.ncbi.nlm.nih.gov/gene/9925	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000780	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ZDHHC5	http://www.ncbi.nlm.nih.gov/gene/25921	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000781	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ZFP36L1	http://www.ncbi.nlm.nih.gov/gene/677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000782	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ZNF2	http://www.ncbi.nlm.nih.gov/gene/7549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000783	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ZNF525	http://www.ncbi.nlm.nih.gov/gene/170958	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000784	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ZNF626	http://www.ncbi.nlm.nih.gov/gene/199777	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000785	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ZNF644	http://www.ncbi.nlm.nih.gov/gene/84146	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000786	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ZNF805	http://www.ncbi.nlm.nih.gov/gene/390980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000787	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ZNRF2	http://www.ncbi.nlm.nih.gov/gene/223082	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000788	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(ebv-mir-bart17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	BC-1	-	Host	mRNA	ZZZ3	http://www.ncbi.nlm.nih.gov/gene/26009	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000789	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-3p(ebv-mir-bart18-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004835	BC-1	-	Host	mRNA	ADCY3	http://www.ncbi.nlm.nih.gov/gene/109	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000790	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-3p(ebv-mir-bart18-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004835	BC-1	-	Host	mRNA	ADIPOR2	http://www.ncbi.nlm.nih.gov/gene/79602	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000791	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-3p(ebv-mir-bart18-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004835	BC-1	-	Host	mRNA	CFLAR	http://www.ncbi.nlm.nih.gov/gene/8837	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000792	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-3p(ebv-mir-bart18-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004835	BC-1	-	Host	mRNA	JMY	http://www.ncbi.nlm.nih.gov/gene/133746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000793	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-3p(ebv-mir-bart18-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004835	BC-1	-	Host	mRNA	LYPLA2	http://www.ncbi.nlm.nih.gov/gene/11313	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000794	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-3p(ebv-mir-bart18-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004835	BC-1	-	Host	mRNA	MDM4	http://www.ncbi.nlm.nih.gov/gene/4194	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000795	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-3p(ebv-mir-bart18-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004835	BC-1	-	Host	mRNA	MTMR9	http://www.ncbi.nlm.nih.gov/gene/66036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000796	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-3p(ebv-mir-bart18-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004835	BC-1	-	Host	mRNA	MVK	http://www.ncbi.nlm.nih.gov/gene/4598	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000797	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-3p(ebv-mir-bart18-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004835	BC-1	-	Host	mRNA	UBXN2A	http://www.ncbi.nlm.nih.gov/gene/165324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000798	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-3p(ebv-mir-bart18-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004835	BC-1	-	Host	mRNA	UPF3B	http://www.ncbi.nlm.nih.gov/gene/65109	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000799	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ACBD5	http://www.ncbi.nlm.nih.gov/gene/91452	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000800	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ACPL2	http://www.ncbi.nlm.nih.gov/gene/92370	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000801	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ADAM17	http://www.ncbi.nlm.nih.gov/gene/6868	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000802	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ADCY7	http://www.ncbi.nlm.nih.gov/gene/113	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000803	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	AFF1	http://www.ncbi.nlm.nih.gov/gene/4299	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000804	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	AGFG1	http://www.ncbi.nlm.nih.gov/gene/3267	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000805	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ALDH9A1	http://www.ncbi.nlm.nih.gov/gene/223	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000806	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ALG2	http://www.ncbi.nlm.nih.gov/gene/85365	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000807	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ANKMY2	http://www.ncbi.nlm.nih.gov/gene/57037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000808	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ARL1	http://www.ncbi.nlm.nih.gov/gene/400	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000809	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ARL6IP5	http://www.ncbi.nlm.nih.gov/gene/10550	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000810	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ATE1	http://www.ncbi.nlm.nih.gov/gene/11101	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000811	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ATL2	http://www.ncbi.nlm.nih.gov/gene/64225	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000812	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ATP6V1A	http://www.ncbi.nlm.nih.gov/gene/523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000813	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	BNIP1	http://www.ncbi.nlm.nih.gov/gene/662	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000814	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	BRWD1	http://www.ncbi.nlm.nih.gov/gene/54014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000815	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	C19orf43	http://www.ncbi.nlm.nih.gov/gene/79002	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000816	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	C6orf204	http://www.ncbi.nlm.nih.gov/gene/387119	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000817	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	C9orf41	http://www.ncbi.nlm.nih.gov/gene/138199	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000818	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000819	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	CDC73	http://www.ncbi.nlm.nih.gov/gene/79577	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000820	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	CDKN3	http://www.ncbi.nlm.nih.gov/gene/1033	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000821	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	CDS2	http://www.ncbi.nlm.nih.gov/gene/8760	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000822	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	CEP55	http://www.ncbi.nlm.nih.gov/gene/55165	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000823	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	CNOT1	http://www.ncbi.nlm.nih.gov/gene/23019	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000824	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	COPA	http://www.ncbi.nlm.nih.gov/gene/1314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000825	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	COPS2	http://www.ncbi.nlm.nih.gov/gene/9318	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000826	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	COPS7B	http://www.ncbi.nlm.nih.gov/gene/64708	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000827	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	CPEB3	http://www.ncbi.nlm.nih.gov/gene/22849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000828	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	CPEB4	http://www.ncbi.nlm.nih.gov/gene/80315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000829	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	CREBBP	http://www.ncbi.nlm.nih.gov/gene/1387	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000830	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	DARS	http://www.ncbi.nlm.nih.gov/gene/1615	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000831	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	DCAF7	http://www.ncbi.nlm.nih.gov/gene/10238	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000832	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	DDX3X	http://www.ncbi.nlm.nih.gov/gene/1654	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000833	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	DDX3Y	http://www.ncbi.nlm.nih.gov/gene/8653	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000834	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	DENND1B	http://www.ncbi.nlm.nih.gov/gene/163486	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000835	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	DPP8	http://www.ncbi.nlm.nih.gov/gene/54878	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000836	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	DYRK1A	http://www.ncbi.nlm.nih.gov/gene/1859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000837	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	EXOC8	http://www.ncbi.nlm.nih.gov/gene/149371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000838	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	EYA3	http://www.ncbi.nlm.nih.gov/gene/2140	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000839	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	FAM108C1	http://www.ncbi.nlm.nih.gov/gene/58489	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000840	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	FAM160A2	http://www.ncbi.nlm.nih.gov/gene/84067	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000841	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	FAM46C	http://www.ncbi.nlm.nih.gov/gene/54855	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000842	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	FAM73A	http://www.ncbi.nlm.nih.gov/gene/374986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000843	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	FBXO28	http://www.ncbi.nlm.nih.gov/gene/23219	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000844	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	GDI2	http://www.ncbi.nlm.nih.gov/gene/2665	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000845	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	GNPNAT1	http://www.ncbi.nlm.nih.gov/gene/64841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000846	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	GORASP2	http://www.ncbi.nlm.nih.gov/gene/26003	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000847	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	HIPK2	http://www.ncbi.nlm.nih.gov/gene/653052	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000848	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	HMBOX1	http://www.ncbi.nlm.nih.gov/gene/79618	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000849	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	HNRNPUL1	http://www.ncbi.nlm.nih.gov/gene/11100	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000850	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	HOMER1	http://www.ncbi.nlm.nih.gov/gene/9456	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000851	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	KANK1	http://www.ncbi.nlm.nih.gov/gene/23189	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000852	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	KAT2B	http://www.ncbi.nlm.nih.gov/gene/8850	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000853	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	KIAA0947	http://www.ncbi.nlm.nih.gov/gene/23379	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000854	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	KLHL15	http://www.ncbi.nlm.nih.gov/gene/80311	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000855	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	KLHL20	http://www.ncbi.nlm.nih.gov/gene/27252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000856	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	LANCL1	http://www.ncbi.nlm.nih.gov/gene/10314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000857	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	LARP4B	http://www.ncbi.nlm.nih.gov/gene/23185	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000858	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	LIN7C	http://www.ncbi.nlm.nih.gov/gene/55327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000859	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	LIX1L	http://www.ncbi.nlm.nih.gov/gene/128077	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000860	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	LRCH1	http://www.ncbi.nlm.nih.gov/gene/23143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000861	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	LSM8	http://www.ncbi.nlm.nih.gov/gene/51691 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000862	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	LUC7L2	http://www.ncbi.nlm.nih.gov/gene/51631	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000863	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	MACF1	http://www.ncbi.nlm.nih.gov/gene/23499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000864	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	MAP3K13	http://www.ncbi.nlm.nih.gov/gene/9175	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000865	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	MAPK1IP1L	http://www.ncbi.nlm.nih.gov/gene/93487	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000866	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	MBLAC2	http://www.ncbi.nlm.nih.gov/gene/153364	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000867	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	MCL1	http://www.ncbi.nlm.nih.gov/gene/4170	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000868	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	MED29	http://www.ncbi.nlm.nih.gov/gene/55588	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000869	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	MEX3C	http://www.ncbi.nlm.nih.gov/gene/51320	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000870	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	MGAT5	http://www.ncbi.nlm.nih.gov/gene/151162	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000871	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	MLLT10	http://www.ncbi.nlm.nih.gov/gene/8028	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000872	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	MRE11A	http://www.ncbi.nlm.nih.gov/gene/4361	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000873	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	MTPN	http://www.ncbi.nlm.nih.gov/gene/767558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000874	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	MYC	http://www.ncbi.nlm.nih.gov/gene/4609	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000875	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	NAB1	http://www.ncbi.nlm.nih.gov/gene/4664	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000876	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	NAPB	http://www.ncbi.nlm.nih.gov/gene/63908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000877	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	NFAT5	http://www.ncbi.nlm.nih.gov/gene/10725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000878	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	NUCKS1	http://www.ncbi.nlm.nih.gov/gene/64710	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000879	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000880	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	NUP153	http://www.ncbi.nlm.nih.gov/gene/9972	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000881	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	NUPL1	http://www.ncbi.nlm.nih.gov/gene/9818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000882	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	OTUD4	http://www.ncbi.nlm.nih.gov/gene/54726	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000883	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	OTUD6B	http://www.ncbi.nlm.nih.gov/gene/51633	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000884	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	PDE12	http://www.ncbi.nlm.nih.gov/gene/201626	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000885	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	PDE7A	http://www.ncbi.nlm.nih.gov/gene/5150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000886	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	PDPR	http://www.ncbi.nlm.nih.gov/gene/55066	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000887	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	PHF20L1	http://www.ncbi.nlm.nih.gov/gene/51105	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000888	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	PIK3R1	http://www.ncbi.nlm.nih.gov/gene/5295	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000889	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	PIM1	http://www.ncbi.nlm.nih.gov/gene/5292	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000890	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	PKD2	http://www.ncbi.nlm.nih.gov/gene/5311	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000891	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	PPP1CC	http://www.ncbi.nlm.nih.gov/gene/5501	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000892	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	PPP1R15B	http://www.ncbi.nlm.nih.gov/gene/84919	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000893	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	PPTC7	http://www.ncbi.nlm.nih.gov/gene/160760	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000894	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	PSMC2	http://www.ncbi.nlm.nih.gov/gene/5701	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000895	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	PURB	http://www.ncbi.nlm.nih.gov/gene/5814	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000896	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	QSER1	http://www.ncbi.nlm.nih.gov/gene/79832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000897	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	RAB11A	http://www.ncbi.nlm.nih.gov/gene/8766	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000898	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	RAB11FIP1	http://www.ncbi.nlm.nih.gov/gene/80223	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000899	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	RANBP6	http://www.ncbi.nlm.nih.gov/gene/26953	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000900	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	RNF111	http://www.ncbi.nlm.nih.gov/gene/54778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000901	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	RNF141	http://www.ncbi.nlm.nih.gov/gene/50862	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000902	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000903	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	RSRC2	http://www.ncbi.nlm.nih.gov/gene/65117	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000904	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	SCD	http://www.ncbi.nlm.nih.gov/gene/6319	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000905	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	SERP1	http://www.ncbi.nlm.nih.gov/gene/27230	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000906	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	SETD7	http://www.ncbi.nlm.nih.gov/gene/80854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000907	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	SLC16A6	http://www.ncbi.nlm.nih.gov/gene/9120	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000908	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	SLC19A2	http://www.ncbi.nlm.nih.gov/gene/10560	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000909	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	SMNDC1	http://www.ncbi.nlm.nih.gov/gene/10285	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000910	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	SP4	http://www.ncbi.nlm.nih.gov/gene/6671	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000911	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	SPATS2	http://www.ncbi.nlm.nih.gov/gene/65244	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000912	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	SPTBN1	http://www.ncbi.nlm.nih.gov/gene/6711	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000913	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	SSFA2	http://www.ncbi.nlm.nih.gov/gene/6744	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000914	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	STARD4	http://www.ncbi.nlm.nih.gov/gene/134429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000915	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	STYX	http://www.ncbi.nlm.nih.gov/gene/6815	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000916	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	TET1	http://www.ncbi.nlm.nih.gov/gene/80312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000917	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	TET2	http://www.ncbi.nlm.nih.gov/gene/54790	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000918	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	TFRC	http://www.ncbi.nlm.nih.gov/gene/7037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000919	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	THAP11	http://www.ncbi.nlm.nih.gov/gene/57215	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000920	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	TMF1	http://www.ncbi.nlm.nih.gov/gene/7110	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000921	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	TOLLIP	http://www.ncbi.nlm.nih.gov/gene/54472	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000922	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000923	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	TPR	http://www.ncbi.nlm.nih.gov/gene/7175	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000924	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	TRIB1	http://www.ncbi.nlm.nih.gov/gene/10221	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000925	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	TRIM65	http://www.ncbi.nlm.nih.gov/gene/201292	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000926	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	TXNDC12	http://www.ncbi.nlm.nih.gov/gene/51060	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000927	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	UBN2	http://www.ncbi.nlm.nih.gov/gene/254048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000928	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	UBR3	http://www.ncbi.nlm.nih.gov/gene/130507	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000929	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	USP33	http://www.ncbi.nlm.nih.gov/gene/23032	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000930	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	USP37	http://www.ncbi.nlm.nih.gov/gene/57695	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000931	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	VDAC1	http://www.ncbi.nlm.nih.gov/gene/7416	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000932	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	WAC	http://www.ncbi.nlm.nih.gov/gene/51322	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000933	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	WDR12	http://www.ncbi.nlm.nih.gov/gene/55759	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000934	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	XPO4	http://www.ncbi.nlm.nih.gov/gene/64328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000935	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	YTHDC2	http://www.ncbi.nlm.nih.gov/gene/64848	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000936	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	YWHAE	http://www.ncbi.nlm.nih.gov/gene/7531	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000937	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ZC3H14	http://www.ncbi.nlm.nih.gov/gene/79882	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000938	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ZFX	http://www.ncbi.nlm.nih.gov/gene/7543	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000939	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ZNF12	http://www.ncbi.nlm.nih.gov/gene/7559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000940	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ZNF217	http://www.ncbi.nlm.nih.gov/gene/7764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000941	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ZNF238	http://www.ncbi.nlm.nih.gov/gene/10472	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000942	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ZNF295	http://www.ncbi.nlm.nih.gov/gene/49854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000943	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ZNF518A	http://www.ncbi.nlm.nih.gov/gene/9849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000944	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ZNF706	http://www.ncbi.nlm.nih.gov/gene/51123	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000945	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART18-5p(ebv-mir-bart18-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003717	BC-1	-	Host	mRNA	ZNHIT3	http://www.ncbi.nlm.nih.gov/gene/9326	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000946	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MARCH6		-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000947	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MARCH8		-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000948	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	AASDHPPT	http://www.ncbi.nlm.nih.gov/gene/60496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000949	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ABI1	http://www.ncbi.nlm.nih.gov/gene/10006	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000950	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ACOT9	http://www.ncbi.nlm.nih.gov/gene/23597	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000951	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ACPL2	http://www.ncbi.nlm.nih.gov/gene/92370	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000952	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ACSL4	http://www.ncbi.nlm.nih.gov/gene/2182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000953	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ADAM10	http://www.ncbi.nlm.nih.gov/gene/102	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000954	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ADCY9	http://www.ncbi.nlm.nih.gov/gene/115	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000955	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ADIPOR2	http://www.ncbi.nlm.nih.gov/gene/79602	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000956	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	AEBP2	http://www.ncbi.nlm.nih.gov/gene/121536	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000957	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	AFF1	http://www.ncbi.nlm.nih.gov/gene/4299	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000958	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	AFF4	http://www.ncbi.nlm.nih.gov/gene/27125	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000959	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	AGPAT3	http://www.ncbi.nlm.nih.gov/gene/56894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000960	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	AHNAK	http://www.ncbi.nlm.nih.gov/gene/79026	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000961	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	AKIRIN1	http://www.ncbi.nlm.nih.gov/gene/79647	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000962	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ALDH3A2	http://www.ncbi.nlm.nih.gov/gene/224	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000963	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ALG10	http://www.ncbi.nlm.nih.gov/gene/84920	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000964	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ANGEL2	http://www.ncbi.nlm.nih.gov/gene/90806	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000965	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ANKFY1	http://www.ncbi.nlm.nih.gov/gene/51479	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000966	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ANKRD50	http://www.ncbi.nlm.nih.gov/gene/57182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000967	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ANP32E	http://www.ncbi.nlm.nih.gov/gene/81611	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000968	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	AP1GBP1	http://www.ncbi.nlm.nih.gov/gene/11276 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000969	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	APC	http://www.ncbi.nlm.nih.gov/gene/324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000970	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	APPBP2	http://www.ncbi.nlm.nih.gov/gene/10513	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000971	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ARFGEF2	http://www.ncbi.nlm.nih.gov/gene/10564	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000972	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ARID4B	http://www.ncbi.nlm.nih.gov/gene/51742	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000973	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ARIH1	http://www.ncbi.nlm.nih.gov/gene/25820	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000974	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ARL5A	http://www.ncbi.nlm.nih.gov/gene/26225	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000975	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ARL6IP5	http://www.ncbi.nlm.nih.gov/gene/10550	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000976	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ARPC2	http://www.ncbi.nlm.nih.gov/gene/10109	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000977	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ARPP-21	http://www.ncbi.nlm.nih.gov/gene/10777 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000978	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ARRDC3	http://www.ncbi.nlm.nih.gov/gene/57561	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000979	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ASH1L	http://www.ncbi.nlm.nih.gov/gene/55870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000980	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ATG2B	http://www.ncbi.nlm.nih.gov/gene/55102	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000981	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ATP11B	http://www.ncbi.nlm.nih.gov/gene/23200	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000982	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ATP2B4	http://www.ncbi.nlm.nih.gov/gene/493	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000983	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ATP6V1A	http://www.ncbi.nlm.nih.gov/gene/523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000984	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ATP6V1B2	http://www.ncbi.nlm.nih.gov/gene/526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000985	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ATXN1	http://www.ncbi.nlm.nih.gov/gene/6310	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000986	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	AVL9	http://www.ncbi.nlm.nih.gov/gene/23080	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000987	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	AZIN1	http://www.ncbi.nlm.nih.gov/gene/51582	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000988	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	B4GALT6	http://www.ncbi.nlm.nih.gov/gene/9331	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000989	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	BARD1	http://www.ncbi.nlm.nih.gov/gene/580	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000990	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	BAT1	http://www.ncbi.nlm.nih.gov/gene/7919	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000991	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	BAZ2B	http://www.ncbi.nlm.nih.gov/gene/29994	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000992	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	BBX	http://www.ncbi.nlm.nih.gov/gene/56987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000993	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	BCL11A	http://www.ncbi.nlm.nih.gov/gene/53335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000994	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	BCL9	http://www.ncbi.nlm.nih.gov/gene/607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000995	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	BNC2	http://www.ncbi.nlm.nih.gov/gene/54796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000996	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	BPTF	http://www.ncbi.nlm.nih.gov/gene/2186	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000997	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	BRAF	http://www.ncbi.nlm.nih.gov/gene/673	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000998	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	BRCA1	http://www.ncbi.nlm.nih.gov/gene/672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00000999	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	BRPF3	http://www.ncbi.nlm.nih.gov/gene/27154	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001000	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	BRWD1	http://www.ncbi.nlm.nih.gov/gene/54014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001001	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	BTG2	http://www.ncbi.nlm.nih.gov/gene/7832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001002	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	BZW1	http://www.ncbi.nlm.nih.gov/gene/391592	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001003	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C10orf84	http://www.ncbi.nlm.nih.gov/gene/63877	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001004	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C12orf4	http://www.ncbi.nlm.nih.gov/gene/283461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001005	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C13orf37	http://www.ncbi.nlm.nih.gov/gene/440145	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001006	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C14orf129	http://www.ncbi.nlm.nih.gov/gene/51527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001007	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C14orf43	http://www.ncbi.nlm.nih.gov/gene/91748	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001008	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C16orf63	http://www.ncbi.nlm.nih.gov/gene/123811	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001009	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C17orf39	http://www.ncbi.nlm.nih.gov/gene/79018	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001010	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C1orf107	http://www.ncbi.nlm.nih.gov/gene/27042	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001011	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C1orf96	http://www.ncbi.nlm.nih.gov/gene/126731	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001012	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C20orf103	http://www.ncbi.nlm.nih.gov/gene/24141	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001013	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C20orf112	http://www.ncbi.nlm.nih.gov/gene/140688	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001014	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C20orf3	http://www.ncbi.nlm.nih.gov/gene/57136	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001015	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C21orf91	http://www.ncbi.nlm.nih.gov/gene/54149	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001016	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C2orf29	http://www.ncbi.nlm.nih.gov/gene/55571	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001017	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C2orf50	http://www.ncbi.nlm.nih.gov/gene/130813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001018	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C3orf38	http://www.ncbi.nlm.nih.gov/gene/285237	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001019	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C3orf63	http://www.ncbi.nlm.nih.gov/gene/23272	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001020	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C3orf64	http://www.ncbi.nlm.nih.gov/gene/285203	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001021	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C5orf28	http://www.ncbi.nlm.nih.gov/gene/64417	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001022	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C5orf41	http://www.ncbi.nlm.nih.gov/gene/153222	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001023	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C6orf106	http://www.ncbi.nlm.nih.gov/gene/64771	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001024	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C6orf204	http://www.ncbi.nlm.nih.gov/gene/387119	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001025	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C6orf35	http://www.ncbi.nlm.nih.gov/gene/23331	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001026	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C7orf23	http://www.ncbi.nlm.nih.gov/gene/79161	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001027	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C7orf70	http://www.ncbi.nlm.nih.gov/gene/84792	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001028	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C8orf76	http://www.ncbi.nlm.nih.gov/gene/84933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001029	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C9orf6	http://www.ncbi.nlm.nih.gov/gene/54942	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001030	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C9orf78	http://www.ncbi.nlm.nih.gov/gene/51759	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001031	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	C9orf80	http://www.ncbi.nlm.nih.gov/gene/58493	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001032	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CALCRL	http://www.ncbi.nlm.nih.gov/gene/10203	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001033	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CALM1	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001034	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CALR	http://www.ncbi.nlm.nih.gov/gene/811	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001035	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CAPN7	http://www.ncbi.nlm.nih.gov/gene/23473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001036	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CBFB	http://www.ncbi.nlm.nih.gov/gene/865	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001037	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CBX3	http://www.ncbi.nlm.nih.gov/gene/11335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001038	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CBX5	http://www.ncbi.nlm.nih.gov/gene/23468	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001039	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CCDC117	http://www.ncbi.nlm.nih.gov/gene/150275	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001040	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CCDC66	http://www.ncbi.nlm.nih.gov/gene/285331	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001041	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CCDC91	http://www.ncbi.nlm.nih.gov/gene/55297	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001042	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CCNG1	http://www.ncbi.nlm.nih.gov/gene/900	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001043	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001044	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CD164	http://www.ncbi.nlm.nih.gov/gene/8763	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001045	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CDC42	http://www.ncbi.nlm.nih.gov/gene/998	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001046	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CDC6	http://www.ncbi.nlm.nih.gov/gene/990	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001047	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CDKN1A	http://www.ncbi.nlm.nih.gov/gene/1026	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001048	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CDS1	http://www.ncbi.nlm.nih.gov/gene/1040	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001049	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CEP110	http://www.ncbi.nlm.nih.gov/gene/11064	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001050	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CHD9	http://www.ncbi.nlm.nih.gov/gene/80205	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001051	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CHST15	http://www.ncbi.nlm.nih.gov/gene/51363	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001052	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CIC	http://www.ncbi.nlm.nih.gov/gene/23152	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001053	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CLCN4	http://www.ncbi.nlm.nih.gov/gene/1183	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001054	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CLDN12	http://www.ncbi.nlm.nih.gov/gene/9069	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001055	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CLTC	http://www.ncbi.nlm.nih.gov/gene/1213	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001056	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CMTM7	http://www.ncbi.nlm.nih.gov/gene/112616	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001057	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	COL24A1	http://www.ncbi.nlm.nih.gov/gene/255631	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001058	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	COL27A1	http://www.ncbi.nlm.nih.gov/gene/85301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001059	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	COMMD2	http://www.ncbi.nlm.nih.gov/gene/51122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001060	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	COMMD6	http://www.ncbi.nlm.nih.gov/gene/170622	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001061	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	COMMD7	http://www.ncbi.nlm.nih.gov/gene/149951	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001062	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	COPB1	http://www.ncbi.nlm.nih.gov/gene/1315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001063	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	COPS2	http://www.ncbi.nlm.nih.gov/gene/9318	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001064	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	COX15	http://www.ncbi.nlm.nih.gov/gene/1355	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001065	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CPEB4	http://www.ncbi.nlm.nih.gov/gene/80315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001066	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CSDE1	http://www.ncbi.nlm.nih.gov/gene/7812	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001067	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CSNK1A1	http://www.ncbi.nlm.nih.gov/gene/1452	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001068	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CSNK1G1	http://www.ncbi.nlm.nih.gov/gene/53944	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001069	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CSNK1G3	http://www.ncbi.nlm.nih.gov/gene/1456	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001070	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CUX1	http://www.ncbi.nlm.nih.gov/gene/1523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001071	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CWC22	http://www.ncbi.nlm.nih.gov/gene/57703	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001072	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CXCR7	http://www.ncbi.nlm.nih.gov/gene/57007	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001073	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CYP2U1	http://www.ncbi.nlm.nih.gov/gene/113612	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001074	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	CYTIP	http://www.ncbi.nlm.nih.gov/gene/9595	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001075	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DCP1A	http://www.ncbi.nlm.nih.gov/gene/55802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001076	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DCP2	http://www.ncbi.nlm.nih.gov/gene/167227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001077	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DCUN1D1	http://www.ncbi.nlm.nih.gov/gene/54165	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001078	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DDI2	http://www.ncbi.nlm.nih.gov/gene/84301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001079	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DDX3Y	http://www.ncbi.nlm.nih.gov/gene/8653	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001080	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DDX46	http://www.ncbi.nlm.nih.gov/gene/9879	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001081	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DENND1B	http://www.ncbi.nlm.nih.gov/gene/163486	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001082	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DIP2C	http://www.ncbi.nlm.nih.gov/gene/22982	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001083	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DIXDC1	http://www.ncbi.nlm.nih.gov/gene/85458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001084	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DLGAP4	http://www.ncbi.nlm.nih.gov/gene/22839	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001085	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DMTF1	http://www.ncbi.nlm.nih.gov/gene/9988	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001086	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DNM1L	http://www.ncbi.nlm.nih.gov/gene/10059	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001087	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DOLPP1	http://www.ncbi.nlm.nih.gov/gene/57171	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001088	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DSG2	http://www.ncbi.nlm.nih.gov/gene/1829	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001089	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DSTYK	http://www.ncbi.nlm.nih.gov/gene/25778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001090	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DUSP16	http://www.ncbi.nlm.nih.gov/gene/80824	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001091	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DVL3	http://www.ncbi.nlm.nih.gov/gene/1857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001092	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DYNC1LI2	http://www.ncbi.nlm.nih.gov/gene/1783	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001093	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DYNLL2	http://www.ncbi.nlm.nih.gov/gene/140735	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001094	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DYRK1A	http://www.ncbi.nlm.nih.gov/gene/1859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001095	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	DYRK2	http://www.ncbi.nlm.nih.gov/gene/8445	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001096	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ECD	http://www.ncbi.nlm.nih.gov/gene/11319	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001097	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	EDF1	http://www.ncbi.nlm.nih.gov/gene/8721	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001098	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	EGR1	http://www.ncbi.nlm.nih.gov/gene/1958	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001099	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	EIF2C4	http://www.ncbi.nlm.nih.gov/gene/192670	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001100	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	EIF2S1	http://www.ncbi.nlm.nih.gov/gene/1965	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001101	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	EIF3H	http://www.ncbi.nlm.nih.gov/gene/8667	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001102	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	EIF3M	http://www.ncbi.nlm.nih.gov/gene/10480	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001103	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	EIF4A1	http://www.ncbi.nlm.nih.gov/gene/728698	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001104	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	EIF4B	http://www.ncbi.nlm.nih.gov/gene/1975	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001105	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	EIF4G2	http://www.ncbi.nlm.nih.gov/gene/1982	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001106	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	EIF5A2	http://www.ncbi.nlm.nih.gov/gene/56648	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001107	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ELK4	http://www.ncbi.nlm.nih.gov/gene/2005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001108	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ENTPD4	http://www.ncbi.nlm.nih.gov/gene/9583	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001109	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	EPB41	http://www.ncbi.nlm.nih.gov/gene/2035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001110	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	EPDR1	http://www.ncbi.nlm.nih.gov/gene/54749	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001111	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ERBB2IP	http://www.ncbi.nlm.nih.gov/gene/55914	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001112	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ERC1	http://www.ncbi.nlm.nih.gov/gene/23085	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001113	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ERLIN2	http://www.ncbi.nlm.nih.gov/gene/11160	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001114	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ETV3	http://www.ncbi.nlm.nih.gov/gene/2117	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001115	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	EVI5	http://www.ncbi.nlm.nih.gov/gene/7813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001116	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	EXOC6	http://www.ncbi.nlm.nih.gov/gene/54536	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001117	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	EYA4	http://www.ncbi.nlm.nih.gov/gene/2070	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001118	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FAM126A	http://www.ncbi.nlm.nih.gov/gene/84668	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001119	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FAM126B	http://www.ncbi.nlm.nih.gov/gene/285172	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001120	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FAM135A	http://www.ncbi.nlm.nih.gov/gene/57579	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001121	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FAM136A	http://www.ncbi.nlm.nih.gov/gene/84908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001122	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FAM160B1	http://www.ncbi.nlm.nih.gov/gene/57700	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001123	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FAM177A1	http://www.ncbi.nlm.nih.gov/gene/283635	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001124	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FAM178A	http://www.ncbi.nlm.nih.gov/gene/55719	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001125	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FAM46C	http://www.ncbi.nlm.nih.gov/gene/54855	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001126	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FAM63B	http://www.ncbi.nlm.nih.gov/gene/54629	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001127	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FAM73A	http://www.ncbi.nlm.nih.gov/gene/374986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001128	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FAM82B	http://www.ncbi.nlm.nih.gov/gene/51115	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001129	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FANCF	http://www.ncbi.nlm.nih.gov/gene/2188	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001130	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FBXO11	http://www.ncbi.nlm.nih.gov/gene/80204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001131	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FBXO28	http://www.ncbi.nlm.nih.gov/gene/23219	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001132	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FCHO2	http://www.ncbi.nlm.nih.gov/gene/115548	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001133	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FDXACB1	http://www.ncbi.nlm.nih.gov/gene/91893	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001134	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FGFR1OP	http://www.ncbi.nlm.nih.gov/gene/11116	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001135	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FKBP7	http://www.ncbi.nlm.nih.gov/gene/51661	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001136	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FNBP4	http://www.ncbi.nlm.nih.gov/gene/23360	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001137	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FNIP1	http://www.ncbi.nlm.nih.gov/gene/96459	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001138	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FNTB	http://www.ncbi.nlm.nih.gov/gene/2342	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001139	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FOXJ3	http://www.ncbi.nlm.nih.gov/gene/22887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001140	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FOXK2	http://www.ncbi.nlm.nih.gov/gene/3607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001141	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FSTL5	http://www.ncbi.nlm.nih.gov/gene/56884	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001142	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FUSIP1	http://www.ncbi.nlm.nih.gov/gene/10772 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001143	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FZD1	http://www.ncbi.nlm.nih.gov/gene/8321	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001144	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	FZD3	http://www.ncbi.nlm.nih.gov/gene/7976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001145	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	G3BP2	http://www.ncbi.nlm.nih.gov/gene/9908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001146	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	GAB1	http://www.ncbi.nlm.nih.gov/gene/2549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001147	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	GADD45A	http://www.ncbi.nlm.nih.gov/gene/1647	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001148	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	GALNT7	http://www.ncbi.nlm.nih.gov/gene/51809	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001149	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	GATAD1	http://www.ncbi.nlm.nih.gov/gene/57798	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001150	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	GATAD2B	http://www.ncbi.nlm.nih.gov/gene/57459	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001151	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	GBAS	http://www.ncbi.nlm.nih.gov/gene/2631	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001152	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	GCNT2	http://www.ncbi.nlm.nih.gov/gene/2651	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001153	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	GLO1	http://www.ncbi.nlm.nih.gov/gene/2739	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001154	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	GLUL	http://www.ncbi.nlm.nih.gov/gene/2752	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001155	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	GMFB	http://www.ncbi.nlm.nih.gov/gene/2764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001156	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	GNB1	http://www.ncbi.nlm.nih.gov/gene/2782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001157	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	GOLT1B	http://www.ncbi.nlm.nih.gov/gene/51026	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001158	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	GOSR1	http://www.ncbi.nlm.nih.gov/gene/9527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001159	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	GPD2	http://www.ncbi.nlm.nih.gov/gene/2820	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001160	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	GRLF1	http://www.ncbi.nlm.nih.gov/gene/2909	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001161	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	GSK3B	http://www.ncbi.nlm.nih.gov/gene/2932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001162	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HAUS1	http://www.ncbi.nlm.nih.gov/gene/115106	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001163	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HAUS2	http://www.ncbi.nlm.nih.gov/gene/55142	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001164	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HAUS3	http://www.ncbi.nlm.nih.gov/gene/79441	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001165	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HAUS5	http://www.ncbi.nlm.nih.gov/gene/23354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001166	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HCFC2	http://www.ncbi.nlm.nih.gov/gene/29915	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001167	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HDHD3	http://www.ncbi.nlm.nih.gov/gene/81932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001168	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HEATR2	http://www.ncbi.nlm.nih.gov/gene/54919	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001169	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HECTD1	http://www.ncbi.nlm.nih.gov/gene/25831	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001170	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HELQ	http://www.ncbi.nlm.nih.gov/gene/113510	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001171	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HERPUD1	http://www.ncbi.nlm.nih.gov/gene/9709	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001172	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HIPK1	http://www.ncbi.nlm.nih.gov/gene/204851	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001173	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HIST1H2AJ	http://www.ncbi.nlm.nih.gov/gene/8331	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001174	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HIST1H4C	http://www.ncbi.nlm.nih.gov/gene/8367	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001175	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HIVEP2	http://www.ncbi.nlm.nih.gov/gene/3097	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001176	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HMGB1	http://www.ncbi.nlm.nih.gov/gene/3146	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001177	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HMGXB4	http://www.ncbi.nlm.nih.gov/gene/10042	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001178	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HN1	http://www.ncbi.nlm.nih.gov/gene/51155	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001179	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HN1L	http://www.ncbi.nlm.nih.gov/gene/90861	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001180	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HNRNPUL2	http://www.ncbi.nlm.nih.gov/gene/221092	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001181	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HOOK1	http://www.ncbi.nlm.nih.gov/gene/51361	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001182	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HSBP1	http://www.ncbi.nlm.nih.gov/gene/3281	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001183	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	HSD17B12	http://www.ncbi.nlm.nih.gov/gene/51144	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001184	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ICK	http://www.ncbi.nlm.nih.gov/gene/22858	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001185	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	IKZF1	http://www.ncbi.nlm.nih.gov/gene/10320	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001186	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	IL6ST	http://www.ncbi.nlm.nih.gov/gene/3572	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001187	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	IMPA1	http://www.ncbi.nlm.nih.gov/gene/3612	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001188	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	INO80D	http://www.ncbi.nlm.nih.gov/gene/54891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001189	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	INSIG1	http://www.ncbi.nlm.nih.gov/gene/3638	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001190	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	INTS2	http://www.ncbi.nlm.nih.gov/gene/57508	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001191	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	IPO7	http://www.ncbi.nlm.nih.gov/gene/10527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001192	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	IPO8	http://www.ncbi.nlm.nih.gov/gene/10526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001193	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	IQSEC1	http://www.ncbi.nlm.nih.gov/gene/9922	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001194	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	IRAK1BP1	http://www.ncbi.nlm.nih.gov/gene/134728	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001195	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ITPKB	http://www.ncbi.nlm.nih.gov/gene/3707	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001196	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	IVD	http://www.ncbi.nlm.nih.gov/gene/3712	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001197	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	JMY	http://www.ncbi.nlm.nih.gov/gene/133746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001198	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	KAT2B	http://www.ncbi.nlm.nih.gov/gene/8850	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001199	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	KDM5B	http://www.ncbi.nlm.nih.gov/gene/10765	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001200	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	KIAA0317	http://www.ncbi.nlm.nih.gov/gene/9870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001201	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	KIAA0831	http://www.ncbi.nlm.nih.gov/gene/22863	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001202	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	KIAA0947	http://www.ncbi.nlm.nih.gov/gene/23379	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001203	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	KIAA1211	http://www.ncbi.nlm.nih.gov/gene/57482	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001204	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	KIAA1219	http://www.ncbi.nlm.nih.gov/gene/57148 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001205	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	KIAA1430	http://www.ncbi.nlm.nih.gov/gene/57587	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001206	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	KIAA1432	http://www.ncbi.nlm.nih.gov/gene/57589	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001207	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	KIAA2018	http://www.ncbi.nlm.nih.gov/gene/205717	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001208	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	KIF23	http://www.ncbi.nlm.nih.gov/gene/9493	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001209	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	KLHL14	http://www.ncbi.nlm.nih.gov/gene/57565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001210	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	KPNA5	http://www.ncbi.nlm.nih.gov/gene/3841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001211	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	KRCC1	http://www.ncbi.nlm.nih.gov/gene/51315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001212	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	LAMP2	http://www.ncbi.nlm.nih.gov/gene/3920	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001213	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	LANCL1	http://www.ncbi.nlm.nih.gov/gene/10314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001214	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	LASP1	http://www.ncbi.nlm.nih.gov/gene/3927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001215	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	LBR	http://www.ncbi.nlm.nih.gov/gene/3930	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001216	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	LCOR	http://www.ncbi.nlm.nih.gov/gene/84458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001217	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	LIN28B	http://www.ncbi.nlm.nih.gov/gene/389421	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001218	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	LIN54	http://www.ncbi.nlm.nih.gov/gene/132660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001219	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	LIN9	http://www.ncbi.nlm.nih.gov/gene/286826	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001220	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	LIPA	http://www.ncbi.nlm.nih.gov/gene/3988	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001221	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	LMAN1	http://www.ncbi.nlm.nih.gov/gene/3998	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001222	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	LRRC58	http://www.ncbi.nlm.nih.gov/gene/116064	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001223	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	LSM1	http://www.ncbi.nlm.nih.gov/gene/27257	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001224	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	LYRM5	http://www.ncbi.nlm.nih.gov/gene/144363	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001225	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	LYST	http://www.ncbi.nlm.nih.gov/gene/1130	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001226	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	LZIC	http://www.ncbi.nlm.nih.gov/gene/84328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001227	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MAK16	http://www.ncbi.nlm.nih.gov/gene/84549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001228	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MAL2	http://www.ncbi.nlm.nih.gov/gene/114569	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001229	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MAP3K2	http://www.ncbi.nlm.nih.gov/gene/10746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001230	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MAPK8	http://www.ncbi.nlm.nih.gov/gene/5599	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001231	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MBNL1	http://www.ncbi.nlm.nih.gov/gene/4154	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001232	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MBNL2	http://www.ncbi.nlm.nih.gov/gene/10150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001233	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MBNL3	http://www.ncbi.nlm.nih.gov/gene/55796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001234	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MBTPS2	http://www.ncbi.nlm.nih.gov/gene/51360	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001235	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MDM2	http://www.ncbi.nlm.nih.gov/gene/4193	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001236	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MDN1	http://www.ncbi.nlm.nih.gov/gene/23195	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001237	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MECP2	http://www.ncbi.nlm.nih.gov/gene/4204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001238	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MED14	http://www.ncbi.nlm.nih.gov/gene/9282	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001239	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	METTL10	http://www.ncbi.nlm.nih.gov/gene/399818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001240	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	METTL5	http://www.ncbi.nlm.nih.gov/gene/29081	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001241	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MFSD8	http://www.ncbi.nlm.nih.gov/gene/256471	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001242	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MKL2	http://www.ncbi.nlm.nih.gov/gene/57496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001243	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MKRN1	http://www.ncbi.nlm.nih.gov/gene/23608	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001244	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MLL	http://www.ncbi.nlm.nih.gov/gene/4297	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001245	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MLL2	http://www.ncbi.nlm.nih.gov/gene/8085	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001246	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MOBKL1A	http://www.ncbi.nlm.nih.gov/gene/92597	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001247	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MON1B	http://www.ncbi.nlm.nih.gov/gene/22879	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001248	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MPP5	http://www.ncbi.nlm.nih.gov/gene/64398	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001249	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MRFAP1	http://www.ncbi.nlm.nih.gov/gene/93621	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001250	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MRP63	http://www.ncbi.nlm.nih.gov/gene/78988	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001251	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MRPL50	http://www.ncbi.nlm.nih.gov/gene/54534	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001252	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MTA1	http://www.ncbi.nlm.nih.gov/gene/9112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001253	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MTBP	http://www.ncbi.nlm.nih.gov/gene/27085	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001254	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MTHFR	http://www.ncbi.nlm.nih.gov/gene/4524	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001255	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MTMR12	http://www.ncbi.nlm.nih.gov/gene/54545	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001256	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MTRR	http://www.ncbi.nlm.nih.gov/gene/4552	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001257	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MTUS1	http://www.ncbi.nlm.nih.gov/gene/57509	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001258	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MXD1	http://www.ncbi.nlm.nih.gov/gene/4084	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001259	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MXD4	http://www.ncbi.nlm.nih.gov/gene/10608	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001260	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MYO5A	http://www.ncbi.nlm.nih.gov/gene/4644	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001261	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	MYO9A	http://www.ncbi.nlm.nih.gov/gene/4649	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001262	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NAPB	http://www.ncbi.nlm.nih.gov/gene/63908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001263	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NAPG	http://www.ncbi.nlm.nih.gov/gene/8774	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001264	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NCK1	http://www.ncbi.nlm.nih.gov/gene/4690	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001265	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NDNL2	http://www.ncbi.nlm.nih.gov/gene/56160	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001266	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NDRG3	http://www.ncbi.nlm.nih.gov/gene/57446	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001267	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NDUFA8	http://www.ncbi.nlm.nih.gov/gene/4702	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001268	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NDUFB5	http://www.ncbi.nlm.nih.gov/gene/4711	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001269	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NEK7	http://www.ncbi.nlm.nih.gov/gene/140609	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001270	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NENF	http://www.ncbi.nlm.nih.gov/gene/29937	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001271	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NEO1	http://www.ncbi.nlm.nih.gov/gene/4756	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001272	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NFIA	http://www.ncbi.nlm.nih.gov/gene/4774	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001273	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001274	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NGRN	http://www.ncbi.nlm.nih.gov/gene/51335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001275	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NHLRC2	http://www.ncbi.nlm.nih.gov/gene/374354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001276	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NIPA2	http://www.ncbi.nlm.nih.gov/gene/81614	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001277	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NLGN1	http://www.ncbi.nlm.nih.gov/gene/22871	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001278	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NOLC1	http://www.ncbi.nlm.nih.gov/gene/9221	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001279	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NONO	http://www.ncbi.nlm.nih.gov/gene/4841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001280	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NOP56	http://www.ncbi.nlm.nih.gov/gene/10528	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001281	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NPHP1	http://www.ncbi.nlm.nih.gov/gene/4867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001282	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NR3C1	http://www.ncbi.nlm.nih.gov/gene/2908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001283	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NRBF2	http://www.ncbi.nlm.nih.gov/gene/29982	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001284	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NT5C2	http://www.ncbi.nlm.nih.gov/gene/22978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001285	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NUDT19	http://www.ncbi.nlm.nih.gov/gene/390916	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001286	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001287	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	NUP54	http://www.ncbi.nlm.nih.gov/gene/53371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001288	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	OGT	http://www.ncbi.nlm.nih.gov/gene/8473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001289	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ORC5L	http://www.ncbi.nlm.nih.gov/gene/5001	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001290	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	OSBP	http://www.ncbi.nlm.nih.gov/gene/5007	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001291	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	OTUD7B	http://www.ncbi.nlm.nih.gov/gene/56957	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001292	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	OXSM	http://www.ncbi.nlm.nih.gov/gene/54995	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001293	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PABPCP5	http://www.ncbi.nlm.nih.gov/gene/341315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001294	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PALM2-AKAP2	http://www.ncbi.nlm.nih.gov/gene/114299	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001295	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PANK3	http://www.ncbi.nlm.nih.gov/gene/79646	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001296	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PAPOLA	http://www.ncbi.nlm.nih.gov/gene/10914	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001297	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PARD6B	http://www.ncbi.nlm.nih.gov/gene/84612	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001298	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PARP8	http://www.ncbi.nlm.nih.gov/gene/79668	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001299	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PBX2	http://www.ncbi.nlm.nih.gov/gene/5089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001300	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PCDH9	http://www.ncbi.nlm.nih.gov/gene/5101	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001301	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PCGF3	http://www.ncbi.nlm.nih.gov/gene/10336	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001302	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PDCD10	http://www.ncbi.nlm.nih.gov/gene/11235	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001303	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PDCL	http://www.ncbi.nlm.nih.gov/gene/5082	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001304	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PDE7A	http://www.ncbi.nlm.nih.gov/gene/5150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001305	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PDIA6	http://www.ncbi.nlm.nih.gov/gene/10130	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001306	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PDIK1L	http://www.ncbi.nlm.nih.gov/gene/149420	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001307	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PELI1	http://www.ncbi.nlm.nih.gov/gene/57162	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001308	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PELO	http://www.ncbi.nlm.nih.gov/gene/53918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001309	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PHC3	http://www.ncbi.nlm.nih.gov/gene/80012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001310	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PHF20L1	http://www.ncbi.nlm.nih.gov/gene/51105	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001311	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PIBF1	http://www.ncbi.nlm.nih.gov/gene/10464	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001312	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PIGN	http://www.ncbi.nlm.nih.gov/gene/23556	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001313	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PIK3C3	http://www.ncbi.nlm.nih.gov/gene/5289	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001314	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PIK3CB	http://www.ncbi.nlm.nih.gov/gene/5291	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001315	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PIP5K1C	http://www.ncbi.nlm.nih.gov/gene/23396	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001316	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PITPNB	http://www.ncbi.nlm.nih.gov/gene/23760	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001317	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PKN2	http://www.ncbi.nlm.nih.gov/gene/5586	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001318	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PLDN	http://www.ncbi.nlm.nih.gov/gene/26258	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001319	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PLS1	http://www.ncbi.nlm.nih.gov/gene/5357	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001320	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001321	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	POU2F2	http://www.ncbi.nlm.nih.gov/gene/5452	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001322	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PPARGC1A	http://www.ncbi.nlm.nih.gov/gene/10891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001323	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PPM1A	http://www.ncbi.nlm.nih.gov/gene/5494	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001324	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PPM1B	http://www.ncbi.nlm.nih.gov/gene/5495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001325	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PPP1R12A	http://www.ncbi.nlm.nih.gov/gene/4659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001326	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PPP1R15B	http://www.ncbi.nlm.nih.gov/gene/84919	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001327	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PPP2R5A	http://www.ncbi.nlm.nih.gov/gene/5525	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001328	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PPP3CA	http://www.ncbi.nlm.nih.gov/gene/5530	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001329	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PPP4R2	http://www.ncbi.nlm.nih.gov/gene/151987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001330	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PPPDE2	http://www.ncbi.nlm.nih.gov/gene/27351	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001331	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PRDM1	http://www.ncbi.nlm.nih.gov/gene/639	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001332	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PRDM2	http://www.ncbi.nlm.nih.gov/gene/7799	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001333	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PRDM8	http://www.ncbi.nlm.nih.gov/gene/56978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001334	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PRKACB	http://www.ncbi.nlm.nih.gov/gene/5567	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001335	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PRKAR1A	http://www.ncbi.nlm.nih.gov/gene/5573	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001336	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PRMT3	http://www.ncbi.nlm.nih.gov/gene/10196	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001337	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PROK2	http://www.ncbi.nlm.nih.gov/gene/60675	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001338	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PRPF40A	http://www.ncbi.nlm.nih.gov/gene/55660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001339	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PSMC2	http://www.ncbi.nlm.nih.gov/gene/5701	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001340	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PTAR1	http://www.ncbi.nlm.nih.gov/gene/375743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001341	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PTN	http://www.ncbi.nlm.nih.gov/gene/5764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001342	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PTPLB	http://www.ncbi.nlm.nih.gov/gene/201562	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001343	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PTPN1	http://www.ncbi.nlm.nih.gov/gene/5770	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001344	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PTPN12	http://www.ncbi.nlm.nih.gov/gene/5782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001345	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PURB	http://www.ncbi.nlm.nih.gov/gene/5814	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001346	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PUS7	http://www.ncbi.nlm.nih.gov/gene/54517	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001347	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PVRL3	http://www.ncbi.nlm.nih.gov/gene/25945	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001348	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	PWWP2A	http://www.ncbi.nlm.nih.gov/gene/114825	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001349	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	QKI	http://www.ncbi.nlm.nih.gov/gene/9444	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001350	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	QSOX2	http://www.ncbi.nlm.nih.gov/gene/169714	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001351	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	R3HDM1	http://www.ncbi.nlm.nih.gov/gene/23518	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001352	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RAB12	http://www.ncbi.nlm.nih.gov/gene/201475	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001353	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RAB14	http://www.ncbi.nlm.nih.gov/gene/51552	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001354	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RAB1A	http://www.ncbi.nlm.nih.gov/gene/5861	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001355	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RAB21	http://www.ncbi.nlm.nih.gov/gene/23011	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001356	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RAB35	http://www.ncbi.nlm.nih.gov/gene/11021	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001357	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RAB5B	http://www.ncbi.nlm.nih.gov/gene/5869	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001358	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RAB8B	http://www.ncbi.nlm.nih.gov/gene/51762	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001359	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RABEP1	http://www.ncbi.nlm.nih.gov/gene/9135	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001360	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RABL3	http://www.ncbi.nlm.nih.gov/gene/285282	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001361	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RAD18	http://www.ncbi.nlm.nih.gov/gene/56852	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001362	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RAD21	http://www.ncbi.nlm.nih.gov/gene/5885	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001363	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RAD51C	http://www.ncbi.nlm.nih.gov/gene/5889	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001364	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RAD52	http://www.ncbi.nlm.nih.gov/gene/5893	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001365	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RAF1	http://www.ncbi.nlm.nih.gov/gene/5894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001366	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RALGPS1	http://www.ncbi.nlm.nih.gov/gene/9649	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001367	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RBL2	http://www.ncbi.nlm.nih.gov/gene/5934	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001368	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RBM25	http://www.ncbi.nlm.nih.gov/gene/58517	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001369	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RBM33	http://www.ncbi.nlm.nih.gov/gene/155435	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001370	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RBM47	http://www.ncbi.nlm.nih.gov/gene/54502	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001371	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RBMXL1	http://www.ncbi.nlm.nih.gov/gene/494115	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001372	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RC3H1	http://www.ncbi.nlm.nih.gov/gene/149041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001373	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RCN2	http://www.ncbi.nlm.nih.gov/gene/5955	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001374	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RCOR1	http://www.ncbi.nlm.nih.gov/gene/23186	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001375	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RCOR3	http://www.ncbi.nlm.nih.gov/gene/55758	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001376	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RFK	http://www.ncbi.nlm.nih.gov/gene/55312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001377	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RFXAP	http://www.ncbi.nlm.nih.gov/gene/5994	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001378	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RGL1	http://www.ncbi.nlm.nih.gov/gene/23179	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001379	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RHOH	http://www.ncbi.nlm.nih.gov/gene/399	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001380	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RHOU	http://www.ncbi.nlm.nih.gov/gene/58480	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001381	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RIF1	http://www.ncbi.nlm.nih.gov/gene/55183	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001382	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RIMBP2	http://www.ncbi.nlm.nih.gov/gene/23504	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001383	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RNASEL	http://www.ncbi.nlm.nih.gov/gene/6041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001384	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RNF20	http://www.ncbi.nlm.nih.gov/gene/56254	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001385	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RNF6	http://www.ncbi.nlm.nih.gov/gene/6049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001386	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001387	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RPL13	http://www.ncbi.nlm.nih.gov/gene/388344	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001388	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RPL35A	http://www.ncbi.nlm.nih.gov/gene/6165	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001389	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RPN1	http://www.ncbi.nlm.nih.gov/gene/6184	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001390	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RPRD1A	http://www.ncbi.nlm.nih.gov/gene/55197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001391	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RPUSD4	http://www.ncbi.nlm.nih.gov/gene/84881	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001392	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RREB1	http://www.ncbi.nlm.nih.gov/gene/6239	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001393	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RRM2	http://www.ncbi.nlm.nih.gov/gene/6241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001394	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RRN3	http://www.ncbi.nlm.nih.gov/gene/54700	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001395	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RSF1	http://www.ncbi.nlm.nih.gov/gene/51773	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001396	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	RUNX2	http://www.ncbi.nlm.nih.gov/gene/860	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001397	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SACM1L	http://www.ncbi.nlm.nih.gov/gene/22908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001398	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SAMSN1	http://www.ncbi.nlm.nih.gov/gene/64092	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001399	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SAP18	http://www.ncbi.nlm.nih.gov/gene/10284	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001400	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SAR1B	http://www.ncbi.nlm.nih.gov/gene/51128	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001401	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SBF2	http://www.ncbi.nlm.nih.gov/gene/81846	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001402	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SCAMP1	http://www.ncbi.nlm.nih.gov/gene/9522	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001403	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SDAD1	http://www.ncbi.nlm.nih.gov/gene/55153	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001404	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SDF2	http://www.ncbi.nlm.nih.gov/gene/6388	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001405	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SEMA3A	http://www.ncbi.nlm.nih.gov/gene/10371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001406	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SETD7	http://www.ncbi.nlm.nih.gov/gene/80854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001407	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SETD8	http://www.ncbi.nlm.nih.gov/gene/387893	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001408	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SFRS15	http://www.ncbi.nlm.nih.gov/gene/57466	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001409	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SFT2D3	http://www.ncbi.nlm.nih.gov/gene/84826	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001410	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SH3BGRL2	http://www.ncbi.nlm.nih.gov/gene/83699	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001411	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SIK2	http://www.ncbi.nlm.nih.gov/gene/23235	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001412	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SIKE1	http://www.ncbi.nlm.nih.gov/gene/80143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001413	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SIRT1	http://www.ncbi.nlm.nih.gov/gene/23411	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001414	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SLAMF7	http://www.ncbi.nlm.nih.gov/gene/57823	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001415	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SLC16A6	http://www.ncbi.nlm.nih.gov/gene/9120	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001416	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SLC20A1	http://www.ncbi.nlm.nih.gov/gene/6574	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001417	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SLC25A36	http://www.ncbi.nlm.nih.gov/gene/55186	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001418	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SLC35A5	http://www.ncbi.nlm.nih.gov/gene/55032	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001419	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SLC35F2	http://www.ncbi.nlm.nih.gov/gene/54733	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001420	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SLC39A10	http://www.ncbi.nlm.nih.gov/gene/57181	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001421	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SLC3A2	http://www.ncbi.nlm.nih.gov/gene/6520	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001422	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SMEK2	http://www.ncbi.nlm.nih.gov/gene/57223	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001423	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SMG1	http://www.ncbi.nlm.nih.gov/gene/23049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001424	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SMURF1	http://www.ncbi.nlm.nih.gov/gene/57154	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001425	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SMURF2	http://www.ncbi.nlm.nih.gov/gene/64750	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001426	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SMYD5	http://www.ncbi.nlm.nih.gov/gene/10322	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001427	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SNAPC5	http://www.ncbi.nlm.nih.gov/gene/10302	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001428	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SNRK	http://www.ncbi.nlm.nih.gov/gene/54861	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001429	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SNTB2	http://www.ncbi.nlm.nih.gov/gene/6645	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001430	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SNX29	http://www.ncbi.nlm.nih.gov/gene/92017	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001431	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SNX3	http://www.ncbi.nlm.nih.gov/gene/8724	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001432	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SNX5	http://www.ncbi.nlm.nih.gov/gene/27131	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001433	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SOS1	http://www.ncbi.nlm.nih.gov/gene/6654	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001434	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SP1	http://www.ncbi.nlm.nih.gov/gene/6667	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001435	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SP2	http://www.ncbi.nlm.nih.gov/gene/6668	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001436	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SP3	http://www.ncbi.nlm.nih.gov/gene/6670	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001437	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SPAG9	http://www.ncbi.nlm.nih.gov/gene/9043	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001438	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SPAST	http://www.ncbi.nlm.nih.gov/gene/6683	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001439	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SPATS2L	http://www.ncbi.nlm.nih.gov/gene/26010	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001440	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SPCS3	http://www.ncbi.nlm.nih.gov/gene/60559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001441	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SPG20	http://www.ncbi.nlm.nih.gov/gene/23111	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001442	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SPG21	http://www.ncbi.nlm.nih.gov/gene/51324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001443	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SPSB1	http://www.ncbi.nlm.nih.gov/gene/80176	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001444	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	STAG2	http://www.ncbi.nlm.nih.gov/gene/10735	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001445	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	STAMBP	http://www.ncbi.nlm.nih.gov/gene/10617	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001446	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	STAT6	http://www.ncbi.nlm.nih.gov/gene/6778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001447	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	STIM2	http://www.ncbi.nlm.nih.gov/gene/57620	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001448	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	STK38L	http://www.ncbi.nlm.nih.gov/gene/23012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001449	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	STK4	http://www.ncbi.nlm.nih.gov/gene/6789	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001450	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	STRN	http://www.ncbi.nlm.nih.gov/gene/6801	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001451	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	STYX	http://www.ncbi.nlm.nih.gov/gene/6815	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001452	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SYNJ2BP	http://www.ncbi.nlm.nih.gov/gene/55333	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001453	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	SYT4	http://www.ncbi.nlm.nih.gov/gene/6860	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001454	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TAF3	http://www.ncbi.nlm.nih.gov/gene/83860	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001455	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TAF9B	http://www.ncbi.nlm.nih.gov/gene/51616	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001456	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TAOK1	http://www.ncbi.nlm.nih.gov/gene/57551	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001457	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TBC1D14	http://www.ncbi.nlm.nih.gov/gene/57533	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001458	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TBL1XR1	http://www.ncbi.nlm.nih.gov/gene/79718	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001459	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TCERG1	http://www.ncbi.nlm.nih.gov/gene/10915	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001460	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TCF3	http://www.ncbi.nlm.nih.gov/gene/6929	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001461	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TCF4	http://www.ncbi.nlm.nih.gov/gene/6925	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001462	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TCF7L2	http://www.ncbi.nlm.nih.gov/gene/6934	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001463	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TET1	http://www.ncbi.nlm.nih.gov/gene/80312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001464	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TET2	http://www.ncbi.nlm.nih.gov/gene/54790	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001465	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TFRC	http://www.ncbi.nlm.nih.gov/gene/7037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001466	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TGFBR3	http://www.ncbi.nlm.nih.gov/gene/7049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001467	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TLK1	http://www.ncbi.nlm.nih.gov/gene/9874	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001468	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TMBIM4	http://www.ncbi.nlm.nih.gov/gene/51643	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001469	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TMCC1	http://www.ncbi.nlm.nih.gov/gene/23023	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001470	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TMCO1	http://www.ncbi.nlm.nih.gov/gene/54499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001471	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TMEM106B	http://www.ncbi.nlm.nih.gov/gene/54664	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001472	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TMEM126A	http://www.ncbi.nlm.nih.gov/gene/84233	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001473	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TMEM192	http://www.ncbi.nlm.nih.gov/gene/201931	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001474	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TMEM30A	http://www.ncbi.nlm.nih.gov/gene/55754	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001475	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TMEM64	http://www.ncbi.nlm.nih.gov/gene/169200	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001476	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TMPO	http://www.ncbi.nlm.nih.gov/gene/7112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001477	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TNPO1	http://www.ncbi.nlm.nih.gov/gene/3842	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001478	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TNRC6B	http://www.ncbi.nlm.nih.gov/gene/23112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001479	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001480	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TPD52	http://www.ncbi.nlm.nih.gov/gene/7163	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001481	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TPRKB	http://www.ncbi.nlm.nih.gov/gene/51002	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001482	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TRA2B	http://www.ncbi.nlm.nih.gov/gene/6434	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001483	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TRIB1	http://www.ncbi.nlm.nih.gov/gene/10221	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001484	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TRIB3	http://www.ncbi.nlm.nih.gov/gene/57761	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001485	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TRIM22	http://www.ncbi.nlm.nih.gov/gene/10346	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001486	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TRIM26	http://www.ncbi.nlm.nih.gov/gene/7726	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001487	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TRIO	http://www.ncbi.nlm.nih.gov/gene/7204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001488	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TROVE2	http://www.ncbi.nlm.nih.gov/gene/6738	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001489	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TSC22D2	http://www.ncbi.nlm.nih.gov/gene/9819	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001490	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TSN	http://www.ncbi.nlm.nih.gov/gene/7247	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001491	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TSPYL1	http://www.ncbi.nlm.nih.gov/gene/7259	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001492	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TTC27	http://www.ncbi.nlm.nih.gov/gene/55622	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001493	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TUBGCP3	http://www.ncbi.nlm.nih.gov/gene/10426	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001494	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	TWSG1	http://www.ncbi.nlm.nih.gov/gene/57045	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001495	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	UBE2D1	http://www.ncbi.nlm.nih.gov/gene/7321	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001496	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	UBE2H	http://www.ncbi.nlm.nih.gov/gene/7328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001497	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	UBE3A	http://www.ncbi.nlm.nih.gov/gene/7337	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001498	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	UBE3C	http://www.ncbi.nlm.nih.gov/gene/9690	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001499	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	UBFD1	http://www.ncbi.nlm.nih.gov/gene/56061	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001500	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	UBN2	http://www.ncbi.nlm.nih.gov/gene/254048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001501	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	UBQLN1	http://www.ncbi.nlm.nih.gov/gene/29979	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001502	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	UCK2	http://www.ncbi.nlm.nih.gov/gene/7371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001503	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	UGCG	http://www.ncbi.nlm.nih.gov/gene/7357	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001504	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	UHMK1	http://www.ncbi.nlm.nih.gov/gene/127933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001505	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	UHRF1BP1L	http://www.ncbi.nlm.nih.gov/gene/23074	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001506	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	USP25	http://www.ncbi.nlm.nih.gov/gene/29761	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001507	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	USP38	http://www.ncbi.nlm.nih.gov/gene/84640	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001508	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	USP42	http://www.ncbi.nlm.nih.gov/gene/84132	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001509	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	USP6NL	http://www.ncbi.nlm.nih.gov/gene/9712	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001510	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	VANGL1	http://www.ncbi.nlm.nih.gov/gene/81839	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001511	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	VGLL4	http://www.ncbi.nlm.nih.gov/gene/9686	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001512	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	VPS45	http://www.ncbi.nlm.nih.gov/gene/11311	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001513	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	VTA1	http://www.ncbi.nlm.nih.gov/gene/51534	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001514	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	WAPAL	http://www.ncbi.nlm.nih.gov/gene/23063	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001515	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	WASL	http://www.ncbi.nlm.nih.gov/gene/8976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001516	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	WDR26	http://www.ncbi.nlm.nih.gov/gene/80232	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001517	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	WDR27	http://www.ncbi.nlm.nih.gov/gene/253769	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001518	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	WDR55	http://www.ncbi.nlm.nih.gov/gene/54853	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001519	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	WDR82	http://www.ncbi.nlm.nih.gov/gene/80335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001520	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	WDR92	http://www.ncbi.nlm.nih.gov/gene/116143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001521	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	WSB2	http://www.ncbi.nlm.nih.gov/gene/55884	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001522	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	WWC1	http://www.ncbi.nlm.nih.gov/gene/23286	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001523	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	WWTR1	http://www.ncbi.nlm.nih.gov/gene/25937	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001524	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	XPO1	http://www.ncbi.nlm.nih.gov/gene/7514	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001525	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	XPO4	http://www.ncbi.nlm.nih.gov/gene/64328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001526	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	YKT6	http://www.ncbi.nlm.nih.gov/gene/10652	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001527	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	YME1L1	http://www.ncbi.nlm.nih.gov/gene/10730	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001528	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	YPEL5	http://www.ncbi.nlm.nih.gov/gene/51646	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001529	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	YTHDF1	http://www.ncbi.nlm.nih.gov/gene/54915	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001530	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	YWHAB	http://www.ncbi.nlm.nih.gov/gene/7529	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001531	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	YWHAZ	http://www.ncbi.nlm.nih.gov/gene/7534	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001532	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZAK	http://www.ncbi.nlm.nih.gov/gene/51776	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001533	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZBTB20	http://www.ncbi.nlm.nih.gov/gene/26137	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001534	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZBTB38	http://www.ncbi.nlm.nih.gov/gene/253461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001535	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZC3HAV1	http://www.ncbi.nlm.nih.gov/gene/56829	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001536	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZCRB1	http://www.ncbi.nlm.nih.gov/gene/85437	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001537	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZDHHC17	http://www.ncbi.nlm.nih.gov/gene/23390	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001538	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZFAND5	http://www.ncbi.nlm.nih.gov/gene/732229	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001539	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZFP36L1	http://www.ncbi.nlm.nih.gov/gene/677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001540	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZFP36L2	http://www.ncbi.nlm.nih.gov/gene/678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001541	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZFP91	http://www.ncbi.nlm.nih.gov/gene/386607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001542	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZFX	http://www.ncbi.nlm.nih.gov/gene/7543	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001543	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZKSCAN1	http://www.ncbi.nlm.nih.gov/gene/7586	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001544	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZMYND11	http://www.ncbi.nlm.nih.gov/gene/10771	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001545	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZNF100	http://www.ncbi.nlm.nih.gov/gene/163227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001546	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZNF138	http://www.ncbi.nlm.nih.gov/gene/7697	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001547	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZNF148	http://www.ncbi.nlm.nih.gov/gene/7707	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001548	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZNF238	http://www.ncbi.nlm.nih.gov/gene/10472	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001549	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZNF326	http://www.ncbi.nlm.nih.gov/gene/284695	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001550	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZNF37A	http://www.ncbi.nlm.nih.gov/gene/7587	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001551	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZNF410	http://www.ncbi.nlm.nih.gov/gene/57862	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001552	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZNF493	http://www.ncbi.nlm.nih.gov/gene/284443	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001553	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZNF507	http://www.ncbi.nlm.nih.gov/gene/22847	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001554	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZNF518A	http://www.ncbi.nlm.nih.gov/gene/9849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001555	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZNF621	http://www.ncbi.nlm.nih.gov/gene/285268	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001556	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZNF652	http://www.ncbi.nlm.nih.gov/gene/22834	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001557	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZNF681	http://www.ncbi.nlm.nih.gov/gene/148213	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001558	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZNF684	http://www.ncbi.nlm.nih.gov/gene/127396	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001559	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZNF708	http://www.ncbi.nlm.nih.gov/gene/7562	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001560	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZRANB2	http://www.ncbi.nlm.nih.gov/gene/9406	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001561	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-3p(ebv-mir-bart19-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003718	BC-1	-	Host	mRNA	ZSWIM6	http://www.ncbi.nlm.nih.gov/gene/57688	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001562	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	API5L1	http://www.ncbi.nlm.nih.gov/gene/8539	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001563	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	APOL4	http://www.ncbi.nlm.nih.gov/gene/80832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001564	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	ARL6IP1	http://www.ncbi.nlm.nih.gov/gene/23204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001565	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	ARMC8	http://www.ncbi.nlm.nih.gov/gene/25852	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001566	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	C11orf46	http://www.ncbi.nlm.nih.gov/gene/120534	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001567	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	C5orf30	http://www.ncbi.nlm.nih.gov/gene/90355	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001568	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	C5orf32	http://www.ncbi.nlm.nih.gov/gene/84418	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001569	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	CDC23	http://www.ncbi.nlm.nih.gov/gene/8697	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001570	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	CDC42	http://www.ncbi.nlm.nih.gov/gene/998	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001571	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	CDV3	http://www.ncbi.nlm.nih.gov/gene/55573	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001572	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	COPS7A	http://www.ncbi.nlm.nih.gov/gene/50813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001573	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	CUL5	http://www.ncbi.nlm.nih.gov/gene/8065	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001574	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	CYB5D1	http://www.ncbi.nlm.nih.gov/gene/124637	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001575	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	DDI2	http://www.ncbi.nlm.nih.gov/gene/84301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001576	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	DYRK2	http://www.ncbi.nlm.nih.gov/gene/8445	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001577	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	EEF1A1	http://www.ncbi.nlm.nih.gov/gene/441032	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001578	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	ELK4	http://www.ncbi.nlm.nih.gov/gene/2005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001579	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	FAM91A1	http://www.ncbi.nlm.nih.gov/gene/157769	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001580	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	GRIA2	http://www.ncbi.nlm.nih.gov/gene/2891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001581	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	HSPA1B	http://www.ncbi.nlm.nih.gov/gene/3303	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001582	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	ILDR1	http://www.ncbi.nlm.nih.gov/gene/286676	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001583	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	INSR	http://www.ncbi.nlm.nih.gov/gene/3643	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001584	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	IRF4	http://www.ncbi.nlm.nih.gov/gene/3662	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001585	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	LCOR	http://www.ncbi.nlm.nih.gov/gene/84458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001586	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	LIN7C	http://www.ncbi.nlm.nih.gov/gene/55327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001587	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	LRIG3	http://www.ncbi.nlm.nih.gov/gene/121227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001588	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	MTF2	http://www.ncbi.nlm.nih.gov/gene/22823	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001589	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	NOLC1	http://www.ncbi.nlm.nih.gov/gene/9221	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001590	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	PERP	http://www.ncbi.nlm.nih.gov/gene/64065	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001591	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	PI4K2B	http://www.ncbi.nlm.nih.gov/gene/55300	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001592	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	PSAP	http://www.ncbi.nlm.nih.gov/gene/5660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001593	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	PTPRJ	http://www.ncbi.nlm.nih.gov/gene/5795	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001594	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	RBMS2P	http://www.ncbi.nlm.nih.gov/gene/643427 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001595	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	RNF168	http://www.ncbi.nlm.nih.gov/gene/165918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001596	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	SMAP2	http://www.ncbi.nlm.nih.gov/gene/64744	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001597	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	STYX	http://www.ncbi.nlm.nih.gov/gene/6815	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001598	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	UBXN4	http://www.ncbi.nlm.nih.gov/gene/23190	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001599	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	ZNF585B	http://www.ncbi.nlm.nih.gov/gene/92285	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001600	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	ZNF652	http://www.ncbi.nlm.nih.gov/gene/22834	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001601	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART19-5p(ebv-mir-bart19-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004836	BC-1	-	Host	mRNA	ZNF770	http://www.ncbi.nlm.nih.gov/gene/54989	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001602	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-3p(ebv-mir-bart2-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004744	BC-1	-	Host	mRNA	ATG12	http://www.ncbi.nlm.nih.gov/gene/9140	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001603	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-3p(ebv-mir-bart2-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004744	BC-1	-	Host	mRNA	ELK4	http://www.ncbi.nlm.nih.gov/gene/2005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001604	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-3p(ebv-mir-bart2-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004744	BC-1	-	Host	mRNA	ETNK1	http://www.ncbi.nlm.nih.gov/gene/55500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001605	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-3p(ebv-mir-bart2-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004744	BC-1	-	Host	mRNA	IER3	http://www.ncbi.nlm.nih.gov/gene/8870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001606	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-3p(ebv-mir-bart2-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004744	BC-1	-	Host	mRNA	SBNO1	http://www.ncbi.nlm.nih.gov/gene/55206	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001607	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-3p(ebv-mir-bart2-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004744	BC-1	-	Host	mRNA	SMG7	http://www.ncbi.nlm.nih.gov/gene/9887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001608	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-3p(ebv-mir-bart2-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004744	BC-1	-	Host	mRNA	TMED4	http://www.ncbi.nlm.nih.gov/gene/222068	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001609	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-3p(ebv-mir-bart2-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004744	BC-1	-	Host	mRNA	TRAM2	http://www.ncbi.nlm.nih.gov/gene/9697	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001610	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-3p(ebv-mir-bart2-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004744	BC-1	-	Host	mRNA	YIPF6	http://www.ncbi.nlm.nih.gov/gene/286451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001611	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	-	-	Host	mRNA	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	-	Quantitative Real-Time PCR, Luciferase Assay, Western Blot.	20413099	Recently, the activating NK cell ligand MICB was found to be targeted by both ebv-miR-BART2-5p, kshv-miR-K12-7 and hcmvmiR-UL112-1.
VHID00001612	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(BART-2-5P)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	-	-	Host	Protein	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	Downregulation	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets (Table 1).Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV- and EBV-encoded miRNAs.
VHID00001613	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(MiR-BART2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	-	-	Host	Protein	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	Downregulation	Dual luciferase reporter assay.	22100165	A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.MiR-K12-7 and MiR-BART2-5p Are the Viral MiRNAs that Mediate MICB Downregulation.To test whether these two viral miRNAs directly bind to the 3'UTR of MICB, we performed a dual luciferase reporter assay.
VHID00001614	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	AADACL1	http://www.ncbi.nlm.nih.gov/gene/57552 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001615	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ABTB2	http://www.ncbi.nlm.nih.gov/gene/25841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001616	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ACADM	http://www.ncbi.nlm.nih.gov/gene/34	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001617	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ACSL4	http://www.ncbi.nlm.nih.gov/gene/2182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001618	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ADAM10	http://www.ncbi.nlm.nih.gov/gene/102	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001619	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ADCY7	http://www.ncbi.nlm.nih.gov/gene/113	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001620	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ADNP2	http://www.ncbi.nlm.nih.gov/gene/22850	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001621	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	AHNAK	http://www.ncbi.nlm.nih.gov/gene/79026	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001622	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	AKAP10	http://www.ncbi.nlm.nih.gov/gene/11216	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001623	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	AKAP13	http://www.ncbi.nlm.nih.gov/gene/11214	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001624	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ANXA7	http://www.ncbi.nlm.nih.gov/gene/310	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001625	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	APC	http://www.ncbi.nlm.nih.gov/gene/324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001626	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ARPC5	http://www.ncbi.nlm.nih.gov/gene/10092	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001627	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ARPP19	http://www.ncbi.nlm.nih.gov/gene/646227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001628	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ARRDC3	http://www.ncbi.nlm.nih.gov/gene/57561	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001629	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ASH1L	http://www.ncbi.nlm.nih.gov/gene/55870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001630	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ASXL2	http://www.ncbi.nlm.nih.gov/gene/55252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001631	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ATE1	http://www.ncbi.nlm.nih.gov/gene/11101	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001632	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ATF2	http://www.ncbi.nlm.nih.gov/gene/1386	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001633	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ATG12	http://www.ncbi.nlm.nih.gov/gene/9140	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001634	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ATXN7	http://www.ncbi.nlm.nih.gov/gene/6314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001635	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	AURKA	http://www.ncbi.nlm.nih.gov/gene/6790	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001636	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	BAG3	http://www.ncbi.nlm.nih.gov/gene/9531	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001637	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	BAZ2B	http://www.ncbi.nlm.nih.gov/gene/29994	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001638	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	BCAP29	http://www.ncbi.nlm.nih.gov/gene/55973	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001639	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	BCOR	http://www.ncbi.nlm.nih.gov/gene/54880	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001640	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	BHLHE22	http://www.ncbi.nlm.nih.gov/gene/27319	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001641	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	BMP2K	http://www.ncbi.nlm.nih.gov/gene/55589	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001642	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	BNC2	http://www.ncbi.nlm.nih.gov/gene/54796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001643	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	BTF3L4	http://www.ncbi.nlm.nih.gov/gene/91408	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001644	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	BTN2A2	http://www.ncbi.nlm.nih.gov/gene/10385	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001645	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	BXDC5	http://www.ncbi.nlm.nih.gov/gene/80135 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001646	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	C1orf109	http://www.ncbi.nlm.nih.gov/gene/54955	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001647	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	C20orf177	http://www.ncbi.nlm.nih.gov/gene/63939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001648	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	C22orf30	http://www.ncbi.nlm.nih.gov/gene/253143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001649	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	C3orf23	http://www.ncbi.nlm.nih.gov/gene/285343	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001650	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	C3orf38	http://www.ncbi.nlm.nih.gov/gene/285237	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001651	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	C3orf64	http://www.ncbi.nlm.nih.gov/gene/285203	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001652	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	C4orf16	http://www.ncbi.nlm.nih.gov/gene/55435 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001653	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	C5orf24	http://www.ncbi.nlm.nih.gov/gene/134553	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001654	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	C6orf204	http://www.ncbi.nlm.nih.gov/gene/387119	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001655	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	C9orf41	http://www.ncbi.nlm.nih.gov/gene/138199	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001656	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	C9orf97	http://www.ncbi.nlm.nih.gov/gene/158427 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001657	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CALM2	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001658	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CAMSAP1L1	http://www.ncbi.nlm.nih.gov/gene/23271	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001659	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001660	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CCDC6	http://www.ncbi.nlm.nih.gov/gene/8030	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001661	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001662	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CD200R1	http://www.ncbi.nlm.nih.gov/gene/131450	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001663	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CDC2L5	http://www.ncbi.nlm.nih.gov/gene/8621 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001664	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CHAC2	http://www.ncbi.nlm.nih.gov/gene/494143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001665	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CLEC2B	http://www.ncbi.nlm.nih.gov/gene/9976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001666	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CLEC2D	http://www.ncbi.nlm.nih.gov/gene/29121	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001667	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CLIC4	http://www.ncbi.nlm.nih.gov/gene/25932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001668	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CLIP1	http://www.ncbi.nlm.nih.gov/gene/6249	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001669	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CNOT3	http://www.ncbi.nlm.nih.gov/gene/4849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001670	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CNOT4	http://www.ncbi.nlm.nih.gov/gene/4850	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001671	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	COMMD2	http://www.ncbi.nlm.nih.gov/gene/51122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001672	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CPEB3	http://www.ncbi.nlm.nih.gov/gene/22849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001673	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CREBL2	http://www.ncbi.nlm.nih.gov/gene/1389	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001674	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CRIPT	http://www.ncbi.nlm.nih.gov/gene/9419	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001675	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CTSS	http://www.ncbi.nlm.nih.gov/gene/1520	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001676	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CYLD	http://www.ncbi.nlm.nih.gov/gene/1540	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001677	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CYP4F3	http://www.ncbi.nlm.nih.gov/gene/4051	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001678	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	CYTH3	http://www.ncbi.nlm.nih.gov/gene/9265	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001679	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	DCBLD1	http://www.ncbi.nlm.nih.gov/gene/285761	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001680	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	DCP1A	http://www.ncbi.nlm.nih.gov/gene/55802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001681	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	DDHD2	http://www.ncbi.nlm.nih.gov/gene/23259	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001682	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	DEPDC1	http://www.ncbi.nlm.nih.gov/gene/55635	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001683	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	DNAJB4	http://www.ncbi.nlm.nih.gov/gene/11080	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001684	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	DPP8	http://www.ncbi.nlm.nih.gov/gene/54878	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001685	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	EFR3A	http://www.ncbi.nlm.nih.gov/gene/23167	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001686	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	EIF4G3	http://www.ncbi.nlm.nih.gov/gene/8672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001687	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ERGIC2	http://www.ncbi.nlm.nih.gov/gene/51290	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001688	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ETNK1	http://www.ncbi.nlm.nih.gov/gene/55500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001689	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	EYA1	http://www.ncbi.nlm.nih.gov/gene/2138	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001690	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	FAM126B	http://www.ncbi.nlm.nih.gov/gene/285172	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001691	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	FAM136A	http://www.ncbi.nlm.nih.gov/gene/84908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001692	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	FAM160B1	http://www.ncbi.nlm.nih.gov/gene/57700	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001693	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	FAM63B	http://www.ncbi.nlm.nih.gov/gene/54629	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001694	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	FDX1	http://www.ncbi.nlm.nih.gov/gene/2230	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001695	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	FGF2	http://www.ncbi.nlm.nih.gov/gene/2247	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001696	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	FGFR1OP2	http://www.ncbi.nlm.nih.gov/gene/26127	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001697	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	FH	http://www.ncbi.nlm.nih.gov/gene/2271	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001698	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	FNDC3A	http://www.ncbi.nlm.nih.gov/gene/22862	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001699	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	FRS2	http://www.ncbi.nlm.nih.gov/gene/10818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001700	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	FZD6	http://www.ncbi.nlm.nih.gov/gene/8323	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001701	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	G3BP1	http://www.ncbi.nlm.nih.gov/gene/10146	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001702	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	GABPA	http://www.ncbi.nlm.nih.gov/gene/2551	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001703	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	GALNT5	http://www.ncbi.nlm.nih.gov/gene/11227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001704	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	GBAS	http://www.ncbi.nlm.nih.gov/gene/2631	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001705	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	GLCCI1	http://www.ncbi.nlm.nih.gov/gene/113263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001706	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	GOLGA8B	http://www.ncbi.nlm.nih.gov/gene/440270	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001707	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	GOLT1B	http://www.ncbi.nlm.nih.gov/gene/51026	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001708	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	GORAB	http://www.ncbi.nlm.nih.gov/gene/92344	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001709	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	GPNMB	http://www.ncbi.nlm.nih.gov/gene/10457	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001710	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	GPRIN3	http://www.ncbi.nlm.nih.gov/gene/285513	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001711	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	GSR	http://www.ncbi.nlm.nih.gov/gene/2936	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001712	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	GUCY1A3	http://www.ncbi.nlm.nih.gov/gene/2982	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001713	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	HACE1	http://www.ncbi.nlm.nih.gov/gene/57531	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001714	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	HCFC2	http://www.ncbi.nlm.nih.gov/gene/29915	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001715	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	HELZ	http://www.ncbi.nlm.nih.gov/gene/9931	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001716	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	HIATL1	http://www.ncbi.nlm.nih.gov/gene/84641	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001717	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	HLA-B	http://www.ncbi.nlm.nih.gov/gene/3106	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001718	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	HMGCS1	http://www.ncbi.nlm.nih.gov/gene/3157	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001719	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	HSDL1	http://www.ncbi.nlm.nih.gov/gene/83693	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001720	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	HSPA13	http://www.ncbi.nlm.nih.gov/gene/6782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001721	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	IREB2	http://www.ncbi.nlm.nih.gov/gene/3658	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001722	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	IRF1	http://www.ncbi.nlm.nih.gov/gene/3659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001723	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	IRGQ	http://www.ncbi.nlm.nih.gov/gene/126298	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001724	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	KIAA1211	http://www.ncbi.nlm.nih.gov/gene/57482	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001725	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	KIAA1383	http://www.ncbi.nlm.nih.gov/gene/54627	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001726	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	KIAA1429	http://www.ncbi.nlm.nih.gov/gene/25962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001727	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	KIAA1704	http://www.ncbi.nlm.nih.gov/gene/55425	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001728	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	KLHDC10	http://www.ncbi.nlm.nih.gov/gene/23008	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001729	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	LCOR	http://www.ncbi.nlm.nih.gov/gene/84458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001730	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	LIN54	http://www.ncbi.nlm.nih.gov/gene/132660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001731	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	LRRC58	http://www.ncbi.nlm.nih.gov/gene/116064	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001732	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	LRRC8B	http://www.ncbi.nlm.nih.gov/gene/23507	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001733	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	LSM14A	http://www.ncbi.nlm.nih.gov/gene/26065	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001734	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	LSM14B	http://www.ncbi.nlm.nih.gov/gene/149986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001735	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	LTV1	http://www.ncbi.nlm.nih.gov/gene/100128319	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001736	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	LYSMD3	http://www.ncbi.nlm.nih.gov/gene/116068	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001737	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	MAK16	http://www.ncbi.nlm.nih.gov/gene/84549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001738	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	MAP3K2	http://www.ncbi.nlm.nih.gov/gene/10746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001739	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	MBTD1	http://www.ncbi.nlm.nih.gov/gene/54799	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001740	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	MDM2	http://www.ncbi.nlm.nih.gov/gene/4193	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001741	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	MECP2	http://www.ncbi.nlm.nih.gov/gene/4204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001742	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	MFSD5	http://www.ncbi.nlm.nih.gov/gene/84975	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001743	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	MOBKL1A	http://www.ncbi.nlm.nih.gov/gene/92597	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001744	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	MTMR12	http://www.ncbi.nlm.nih.gov/gene/54545	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001745	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	MXD1	http://www.ncbi.nlm.nih.gov/gene/4084	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001746	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	NOB1	http://www.ncbi.nlm.nih.gov/gene/100132364	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001747	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	NOTCH2NL	http://www.ncbi.nlm.nih.gov/gene/388677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001748	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	NR2C2	http://www.ncbi.nlm.nih.gov/gene/7182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001749	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001750	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	NUPL1	http://www.ncbi.nlm.nih.gov/gene/9818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001751	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ORC2L	http://www.ncbi.nlm.nih.gov/gene/4999	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001752	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	OTUD1	http://www.ncbi.nlm.nih.gov/gene/220213	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001753	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	OTUD4	http://www.ncbi.nlm.nih.gov/gene/54726	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001754	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PAFAH1B1	http://www.ncbi.nlm.nih.gov/gene/5048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001755	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PAIP2	http://www.ncbi.nlm.nih.gov/gene/51247	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001756	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PANK3	http://www.ncbi.nlm.nih.gov/gene/79646	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001757	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PCDH17	http://www.ncbi.nlm.nih.gov/gene/27253	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001758	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PDE7A	http://www.ncbi.nlm.nih.gov/gene/5150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001759	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PEBP1	http://www.ncbi.nlm.nih.gov/gene/5037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001760	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PELI1	http://www.ncbi.nlm.nih.gov/gene/57162	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001761	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PJA2	http://www.ncbi.nlm.nih.gov/gene/9867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001762	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PKIA	http://www.ncbi.nlm.nih.gov/gene/5569	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001763	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PNN	http://www.ncbi.nlm.nih.gov/gene/5411	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001764	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PNPLA4	http://www.ncbi.nlm.nih.gov/gene/8228	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001765	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PPP2R5C	http://www.ncbi.nlm.nih.gov/gene/5527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001766	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PPP4R2	http://www.ncbi.nlm.nih.gov/gene/151987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001767	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PRKAA1	http://www.ncbi.nlm.nih.gov/gene/5562	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001768	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PRKAB2	http://www.ncbi.nlm.nih.gov/gene/5565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001769	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PSIP1	http://www.ncbi.nlm.nih.gov/gene/11168	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001770	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PTAR1	http://www.ncbi.nlm.nih.gov/gene/375743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001771	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PTEN	http://www.ncbi.nlm.nih.gov/gene/11191	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001772	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PTPN4	http://www.ncbi.nlm.nih.gov/gene/5775	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001773	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PTPN9	http://www.ncbi.nlm.nih.gov/gene/5780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001774	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	PURB	http://www.ncbi.nlm.nih.gov/gene/5814	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001775	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	QSER1	http://www.ncbi.nlm.nih.gov/gene/79832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001776	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	RAD23B	http://www.ncbi.nlm.nih.gov/gene/5887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001777	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	RAD51AP1	http://www.ncbi.nlm.nih.gov/gene/10635	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001778	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	RAPH1	http://www.ncbi.nlm.nih.gov/gene/65059	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001779	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	RBBP8	http://www.ncbi.nlm.nih.gov/gene/5932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001780	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	RC3H2	http://www.ncbi.nlm.nih.gov/gene/54542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001781	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	REV3L	http://www.ncbi.nlm.nih.gov/gene/5980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001782	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	RFC2	http://www.ncbi.nlm.nih.gov/gene/5982	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001783	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	RFFL	http://www.ncbi.nlm.nih.gov/gene/117584	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001784	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	RFX7	http://www.ncbi.nlm.nih.gov/gene/64864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001785	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	RHPN2	http://www.ncbi.nlm.nih.gov/gene/85415	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001786	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	RNF168	http://www.ncbi.nlm.nih.gov/gene/165918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001787	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	RNF2	http://www.ncbi.nlm.nih.gov/gene/6045	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001788	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	RPL36AL	http://www.ncbi.nlm.nih.gov/gene/6166	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001789	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	RRAGC	http://www.ncbi.nlm.nih.gov/gene/64121	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001790	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	RRN3	http://www.ncbi.nlm.nih.gov/gene/54700	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001791	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	RUFY2	http://www.ncbi.nlm.nih.gov/gene/55680	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001792	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SACM1L	http://www.ncbi.nlm.nih.gov/gene/22908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001793	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SCOC	http://www.ncbi.nlm.nih.gov/gene/60592	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001794	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SEMA7A	http://www.ncbi.nlm.nih.gov/gene/8482	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001795	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SFRS15	http://www.ncbi.nlm.nih.gov/gene/57466	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001796	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SFXN1	http://www.ncbi.nlm.nih.gov/gene/94081	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001797	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SHCBP1	http://www.ncbi.nlm.nih.gov/gene/79801	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001798	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SIAH1	http://www.ncbi.nlm.nih.gov/gene/6477	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001799	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SIKE1	http://www.ncbi.nlm.nih.gov/gene/80143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001800	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SIX4	http://www.ncbi.nlm.nih.gov/gene/51804	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001801	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SLC22A23	http://www.ncbi.nlm.nih.gov/gene/63027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001802	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SLC31A1	http://www.ncbi.nlm.nih.gov/gene/1317	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001803	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SLC39A10	http://www.ncbi.nlm.nih.gov/gene/57181	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001804	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SLC5A3	http://www.ncbi.nlm.nih.gov/gene/6526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001805	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SMAD2	http://www.ncbi.nlm.nih.gov/gene/4087	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001806	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SMC3	http://www.ncbi.nlm.nih.gov/gene/9126	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001807	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SNX16	http://www.ncbi.nlm.nih.gov/gene/64089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001808	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SP100	http://www.ncbi.nlm.nih.gov/gene/6672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001809	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SPCS3	http://www.ncbi.nlm.nih.gov/gene/60559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001810	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SPRED1	http://www.ncbi.nlm.nih.gov/gene/161742	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001811	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	STAM2	http://www.ncbi.nlm.nih.gov/gene/10254	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001812	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	STK3	http://www.ncbi.nlm.nih.gov/gene/6788	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001813	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	STX6	http://www.ncbi.nlm.nih.gov/gene/10228	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001814	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	SYNCRIP	http://www.ncbi.nlm.nih.gov/gene/10492	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001815	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TANK	http://www.ncbi.nlm.nih.gov/gene/10010	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001816	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TAP2	http://www.ncbi.nlm.nih.gov/gene/6891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001817	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TBRG1	http://www.ncbi.nlm.nih.gov/gene/84897	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001818	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TCF3	http://www.ncbi.nlm.nih.gov/gene/6929	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001819	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TET2	http://www.ncbi.nlm.nih.gov/gene/54790	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001820	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TFDP1	http://www.ncbi.nlm.nih.gov/gene/7027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001821	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TLK1	http://www.ncbi.nlm.nih.gov/gene/9874	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001822	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TM7SF3	http://www.ncbi.nlm.nih.gov/gene/51768	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001823	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TM9SF3	http://www.ncbi.nlm.nih.gov/gene/56889	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001824	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TMBIM6	http://www.ncbi.nlm.nih.gov/gene/7009	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001825	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TMEM168	http://www.ncbi.nlm.nih.gov/gene/64418	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001826	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TMEM30A	http://www.ncbi.nlm.nih.gov/gene/55754	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001827	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TMSB10	http://www.ncbi.nlm.nih.gov/gene/9168	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001828	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TOR1AIP2	http://www.ncbi.nlm.nih.gov/gene/163590	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001829	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001830	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TPD52	http://www.ncbi.nlm.nih.gov/gene/7163	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001831	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TRAPPC3	http://www.ncbi.nlm.nih.gov/gene/27095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001832	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TTC37	http://www.ncbi.nlm.nih.gov/gene/9652	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001833	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	TWISTNB	http://www.ncbi.nlm.nih.gov/gene/221830	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001834	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	UBE2Z	http://www.ncbi.nlm.nih.gov/gene/65264	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001835	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	UBXN2A	http://www.ncbi.nlm.nih.gov/gene/165324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001836	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	UFM1	http://www.ncbi.nlm.nih.gov/gene/51569	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001837	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	UHMK1	http://www.ncbi.nlm.nih.gov/gene/127933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001838	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	UPF1	http://www.ncbi.nlm.nih.gov/gene/5976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001839	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	USP14	http://www.ncbi.nlm.nih.gov/gene/9097	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001840	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	USP37	http://www.ncbi.nlm.nih.gov/gene/57695	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001841	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	WDR37	http://www.ncbi.nlm.nih.gov/gene/22884	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001842	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	WDR41	http://www.ncbi.nlm.nih.gov/gene/55255	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001843	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	WIPF2	http://www.ncbi.nlm.nih.gov/gene/147179	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001844	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	XRCC5	http://www.ncbi.nlm.nih.gov/gene/7520	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001845	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	YEATS4	http://www.ncbi.nlm.nih.gov/gene/8089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001846	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	YWHAG	http://www.ncbi.nlm.nih.gov/gene/7532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001847	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZAK	http://www.ncbi.nlm.nih.gov/gene/51776	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001848	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZBTB33	http://www.ncbi.nlm.nih.gov/gene/10009	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001849	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZBTB37	http://www.ncbi.nlm.nih.gov/gene/84614	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001850	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZFAND3	http://www.ncbi.nlm.nih.gov/gene/60685	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001851	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZFYVE20	http://www.ncbi.nlm.nih.gov/gene/64145	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001852	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF100	http://www.ncbi.nlm.nih.gov/gene/163227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001853	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF124	http://www.ncbi.nlm.nih.gov/gene/7678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001854	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF146	http://www.ncbi.nlm.nih.gov/gene/7705	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001855	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF180	http://www.ncbi.nlm.nih.gov/gene/7733	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001856	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF197	http://www.ncbi.nlm.nih.gov/gene/10168	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001857	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF22	http://www.ncbi.nlm.nih.gov/gene/7570	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001858	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF238	http://www.ncbi.nlm.nih.gov/gene/10472	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001859	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF24	http://www.ncbi.nlm.nih.gov/gene/7572	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001860	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF254	http://www.ncbi.nlm.nih.gov/gene/9534	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001861	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF280B	http://www.ncbi.nlm.nih.gov/gene/140883	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001862	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF331	http://www.ncbi.nlm.nih.gov/gene/55422	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001863	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF37A	http://www.ncbi.nlm.nih.gov/gene/7587	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001864	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF436	http://www.ncbi.nlm.nih.gov/gene/80818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001865	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF451	http://www.ncbi.nlm.nih.gov/gene/26036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001866	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF460	http://www.ncbi.nlm.nih.gov/gene/10794	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001867	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF507	http://www.ncbi.nlm.nih.gov/gene/22847	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001868	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF518A	http://www.ncbi.nlm.nih.gov/gene/9849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001869	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF614	http://www.ncbi.nlm.nih.gov/gene/80110	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001870	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF624	http://www.ncbi.nlm.nih.gov/gene/57547	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001871	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF626	http://www.ncbi.nlm.nih.gov/gene/199777	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001872	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF652	http://www.ncbi.nlm.nih.gov/gene/22834	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001873	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF664	http://www.ncbi.nlm.nih.gov/gene/144348	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001874	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF676	http://www.ncbi.nlm.nih.gov/gene/163223	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001875	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF714	http://www.ncbi.nlm.nih.gov/gene/148206	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001876	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF724P	http://www.ncbi.nlm.nih.gov/gene/440519	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001877	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF770	http://www.ncbi.nlm.nih.gov/gene/54989	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001878	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF772	http://www.ncbi.nlm.nih.gov/gene/400720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001879	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF805	http://www.ncbi.nlm.nih.gov/gene/390980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001880	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF828	http://www.ncbi.nlm.nih.gov/gene/283489	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001881	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZNF92	http://www.ncbi.nlm.nih.gov/gene/168374	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001882	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	BC-1	-	Host	mRNA	ZWILCH	http://www.ncbi.nlm.nih.gov/gene/55055	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001883	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	AADACL1	http://www.ncbi.nlm.nih.gov/gene/57552 	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001884	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	ACADM	http://www.ncbi.nlm.nih.gov/gene/34	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001885	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	ADNP	http://www.ncbi.nlm.nih.gov/gene/23394	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001886	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	ADNP2	http://www.ncbi.nlm.nih.gov/gene/22850	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001887	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	AKAP10	http://www.ncbi.nlm.nih.gov/gene/11216	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001888	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	ATP8A1	http://www.ncbi.nlm.nih.gov/gene/10396	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001889	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	BCOR	http://www.ncbi.nlm.nih.gov/gene/54880	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001890	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	C17orf80	http://www.ncbi.nlm.nih.gov/gene/55028	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001891	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	C1orf109	http://www.ncbi.nlm.nih.gov/gene/54955	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001892	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	C3orf38	http://www.ncbi.nlm.nih.gov/gene/285237	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001893	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	CALM2	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001894	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	CDC2L5	http://www.ncbi.nlm.nih.gov/gene/8621 	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001895	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	CDC73	http://www.ncbi.nlm.nih.gov/gene/79577	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001896	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	CDK6	http://www.ncbi.nlm.nih.gov/gene/1021	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001897	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	CLIC4	http://www.ncbi.nlm.nih.gov/gene/25932	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001898	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	CREB3L2	http://www.ncbi.nlm.nih.gov/gene/64764	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001899	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	CYLD	http://www.ncbi.nlm.nih.gov/gene/1540	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001900	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	CYTH3	http://www.ncbi.nlm.nih.gov/gene/9265	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001901	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	DICER1	http://www.ncbi.nlm.nih.gov/gene/23405	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001902	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	DIS3	http://www.ncbi.nlm.nih.gov/gene/22894	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001903	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	DMXL1	http://www.ncbi.nlm.nih.gov/gene/1657	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001904	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	E2F3	http://www.ncbi.nlm.nih.gov/gene/1871	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001905	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	EFCAB14-AS1(KIAA0494)		-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001906	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	ERO1LB	http://www.ncbi.nlm.nih.gov/gene/56605	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001907	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	ETNK1	http://www.ncbi.nlm.nih.gov/gene/55500	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001908	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	FAM174A	http://www.ncbi.nlm.nih.gov/gene/345757	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001909	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	FAM49B	http://www.ncbi.nlm.nih.gov/gene/51571	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001910	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	FAM63B	http://www.ncbi.nlm.nih.gov/gene/54629	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001911	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	FBXO28	http://www.ncbi.nlm.nih.gov/gene/23219	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001912	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	FNDC3A	http://www.ncbi.nlm.nih.gov/gene/22862	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001913	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	G3BP1	http://www.ncbi.nlm.nih.gov/gene/10146	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001914	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	GLT8D3	http://www.ncbi.nlm.nih.gov/gene/283464 	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001915	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	GPX1	http://www.ncbi.nlm.nih.gov/gene/2876	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001916	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	HCFC2	http://www.ncbi.nlm.nih.gov/gene/29915	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001917	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	HERC5	http://www.ncbi.nlm.nih.gov/gene/51191	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001918	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	HIATL1	http://www.ncbi.nlm.nih.gov/gene/84641	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001919	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	HIVEP2	http://www.ncbi.nlm.nih.gov/gene/3097	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001920	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	HLA-B	http://www.ncbi.nlm.nih.gov/gene/3106	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001921	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	IRF1	http://www.ncbi.nlm.nih.gov/gene/3659	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001922	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	KIAA1432	http://www.ncbi.nlm.nih.gov/gene/57589	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001923	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	KIF5B	http://www.ncbi.nlm.nih.gov/gene/3799	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001924	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	KLHDC10	http://www.ncbi.nlm.nih.gov/gene/23008	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001925	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	LAP3	http://www.ncbi.nlm.nih.gov/gene/51056	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001926	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	LEPROTL1	http://www.ncbi.nlm.nih.gov/gene/23484	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001927	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	MAML2	http://www.ncbi.nlm.nih.gov/gene/84441	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001928	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	MEF2A	http://www.ncbi.nlm.nih.gov/gene/4205	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001929	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	MFSD5	http://www.ncbi.nlm.nih.gov/gene/84975	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001930	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	MOBKL1A	http://www.ncbi.nlm.nih.gov/gene/92597	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001931	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	NR2C2	http://www.ncbi.nlm.nih.gov/gene/7182	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001932	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	NUPL1	http://www.ncbi.nlm.nih.gov/gene/9818	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001933	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	OTUD1	http://www.ncbi.nlm.nih.gov/gene/220213	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001934	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	PAFAH1B1	http://www.ncbi.nlm.nih.gov/gene/5048	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001935	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	PDE7A	http://www.ncbi.nlm.nih.gov/gene/5150	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001936	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	PDLIM1	http://www.ncbi.nlm.nih.gov/gene/9124	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001937	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	PDLIM5	http://www.ncbi.nlm.nih.gov/gene/10611	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001938	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	PJA2	http://www.ncbi.nlm.nih.gov/gene/9867	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001939	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	PPP2R2D	http://www.ncbi.nlm.nih.gov/gene/55844	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001940	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	PRKCB	http://www.ncbi.nlm.nih.gov/gene/5579	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001941	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	PSIP1	http://www.ncbi.nlm.nih.gov/gene/11168	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001942	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	PSMA4	http://www.ncbi.nlm.nih.gov/gene/5685	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001943	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	QSER1	http://www.ncbi.nlm.nih.gov/gene/79832	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001944	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	RBM26	http://www.ncbi.nlm.nih.gov/gene/64062	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001945	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	RC3H2	http://www.ncbi.nlm.nih.gov/gene/54542	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001946	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	REEP3	http://www.ncbi.nlm.nih.gov/gene/221035	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001947	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	RFFL	http://www.ncbi.nlm.nih.gov/gene/117584	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001948	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	RFX7	http://www.ncbi.nlm.nih.gov/gene/64864	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001949	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	RLF	http://www.ncbi.nlm.nih.gov/gene/6018	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001950	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	RNF2	http://www.ncbi.nlm.nih.gov/gene/6045	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001951	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	RPL30	http://www.ncbi.nlm.nih.gov/gene/6156	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001952	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	RRN3	http://www.ncbi.nlm.nih.gov/gene/54700	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001953	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	RUFY2	http://www.ncbi.nlm.nih.gov/gene/55680	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001954	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	SCOC	http://www.ncbi.nlm.nih.gov/gene/60592	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001955	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	SEC23A	http://www.ncbi.nlm.nih.gov/gene/10484	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001956	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	SEC31A	http://www.ncbi.nlm.nih.gov/gene/22872	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001957	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	SERBP1	http://www.ncbi.nlm.nih.gov/gene/26135	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001958	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	SHCBP1	http://www.ncbi.nlm.nih.gov/gene/79801	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001959	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	SIPA1L1	http://www.ncbi.nlm.nih.gov/gene/26037	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001960	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	SLC31A1	http://www.ncbi.nlm.nih.gov/gene/1317	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001961	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	SLFN13	http://www.ncbi.nlm.nih.gov/gene/146857	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001962	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	SP100	http://www.ncbi.nlm.nih.gov/gene/6672	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001963	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	STAU1	http://www.ncbi.nlm.nih.gov/gene/6780	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001964	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	THUMPD1	http://www.ncbi.nlm.nih.gov/gene/55623	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001965	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	TM7SF3	http://www.ncbi.nlm.nih.gov/gene/51768	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001966	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	TMEM30A	http://www.ncbi.nlm.nih.gov/gene/55754	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001967	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	TMSB10	http://www.ncbi.nlm.nih.gov/gene/9168	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001968	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	TPD52	http://www.ncbi.nlm.nih.gov/gene/7163	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001969	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	TRAPPC3	http://www.ncbi.nlm.nih.gov/gene/27095	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001970	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	TRIP11	http://www.ncbi.nlm.nih.gov/gene/9321	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001971	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	UCHL1	http://www.ncbi.nlm.nih.gov/gene/7345	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001972	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	USP37	http://www.ncbi.nlm.nih.gov/gene/57695	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001973	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	USP45	http://www.ncbi.nlm.nih.gov/gene/85015	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001974	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	YES1	http://www.ncbi.nlm.nih.gov/gene/7525	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001975	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	ZAK	http://www.ncbi.nlm.nih.gov/gene/51776	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001976	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	ZBTB1	http://www.ncbi.nlm.nih.gov/gene/22890	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001977	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	ZBTB33	http://www.ncbi.nlm.nih.gov/gene/10009	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001978	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	ZBTB44	http://www.ncbi.nlm.nih.gov/gene/29068	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001979	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	ZNF100	http://www.ncbi.nlm.nih.gov/gene/163227	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001980	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	ZNF436	http://www.ncbi.nlm.nih.gov/gene/80818	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001981	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	ZNF652	http://www.ncbi.nlm.nih.gov/gene/22834	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001982	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	ZNF828	http://www.ncbi.nlm.nih.gov/gene/283489	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00001983	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(ebv-mir-bart2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Lymphoblastoid cell lines	-	Host	mRNA	ZNFX1	http://www.ncbi.nlm.nih.gov/gene/57169	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00001984	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(miR-BART2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	-	-	Host	Protein	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00001985	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(miR-BART2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	-	-	Host	mRNA	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VHID00001986	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART2-5p(miR-BART2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	Natural Killer (NK) cell	-	Host	mRNA	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	Downregulation	Western Blot,Quantitative Real-Time PCR, Luciferase Assay.	19380116	KSHV and EBV Downregulate MICB Expression via a MiRNA-Based Translational Repression Mechanism.MiR-K12-7 and MiR-BART2-5p Directly Bind to the 3'UTR of MICB.
VHID00001987	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ABI2	http://www.ncbi.nlm.nih.gov/gene/10152	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001988	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ACBD5	http://www.ncbi.nlm.nih.gov/gene/91452	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001989	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ACSL1	http://www.ncbi.nlm.nih.gov/gene/2180	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001990	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	AHNAK	http://www.ncbi.nlm.nih.gov/gene/79026	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001991	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	AKAP11	http://www.ncbi.nlm.nih.gov/gene/11215	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001992	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ALDH1B1	http://www.ncbi.nlm.nih.gov/gene/219	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001993	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	AMD1	http://www.ncbi.nlm.nih.gov/gene/262	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001994	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ANKRD13B	http://www.ncbi.nlm.nih.gov/gene/124930	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001995	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ARD1B	http://www.ncbi.nlm.nih.gov/gene/84779 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001996	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ARID4B	http://www.ncbi.nlm.nih.gov/gene/51742	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001997	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ARL8B	http://www.ncbi.nlm.nih.gov/gene/55207	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001998	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ASF1A	http://www.ncbi.nlm.nih.gov/gene/25842	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00001999	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ASF1B	http://www.ncbi.nlm.nih.gov/gene/55723	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002000	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	B4GALT6	http://www.ncbi.nlm.nih.gov/gene/9331	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002001	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	BAG5	http://www.ncbi.nlm.nih.gov/gene/9529	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002002	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	BAZ2A	http://www.ncbi.nlm.nih.gov/gene/11176	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002003	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	BRWD1	http://www.ncbi.nlm.nih.gov/gene/54014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002004	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	BTBD1	http://www.ncbi.nlm.nih.gov/gene/53339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002005	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	C10orf118	http://www.ncbi.nlm.nih.gov/gene/55088	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002006	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	C12orf51	http://www.ncbi.nlm.nih.gov/gene/283450	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002007	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	C17orf49	http://www.ncbi.nlm.nih.gov/gene/124944	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002008	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	C19orf10	http://www.ncbi.nlm.nih.gov/gene/56005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002009	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	C20orf27	http://www.ncbi.nlm.nih.gov/gene/54976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002010	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	C6orf167	http://www.ncbi.nlm.nih.gov/gene/253714	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002011	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CA2	http://www.ncbi.nlm.nih.gov/gene/760	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002012	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CAND1	http://www.ncbi.nlm.nih.gov/gene/55832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002013	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CAPZA1	http://www.ncbi.nlm.nih.gov/gene/829	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002014	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CARD8	http://www.ncbi.nlm.nih.gov/gene/22900	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002015	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002016	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CCDC132	http://www.ncbi.nlm.nih.gov/gene/55610	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002017	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CDK6	http://www.ncbi.nlm.nih.gov/gene/1021	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002018	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CDV3	http://www.ncbi.nlm.nih.gov/gene/55573	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002019	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CEP110	http://www.ncbi.nlm.nih.gov/gene/11064	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002020	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CERK	http://www.ncbi.nlm.nih.gov/gene/64781	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002021	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CLDND1	http://www.ncbi.nlm.nih.gov/gene/56650	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002022	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CLPX	http://www.ncbi.nlm.nih.gov/gene/10845	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002023	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	COBLL1	http://www.ncbi.nlm.nih.gov/gene/22837	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002024	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	COPZ1	http://www.ncbi.nlm.nih.gov/gene/22818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002025	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	COX11	http://www.ncbi.nlm.nih.gov/gene/1353	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002026	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CPEB3	http://www.ncbi.nlm.nih.gov/gene/22849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002027	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CRCP	http://www.ncbi.nlm.nih.gov/gene/27297	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002028	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CRK	http://www.ncbi.nlm.nih.gov/gene/1398	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002029	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CSDE1	http://www.ncbi.nlm.nih.gov/gene/7812	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002030	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CSNK1G2	http://www.ncbi.nlm.nih.gov/gene/1455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002031	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CSNK2A1	http://www.ncbi.nlm.nih.gov/gene/283106	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002032	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CSRNP2	http://www.ncbi.nlm.nih.gov/gene/81566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002033	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CUGBP1	http://www.ncbi.nlm.nih.gov/gene/10658 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002034	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	CUL4A	http://www.ncbi.nlm.nih.gov/gene/8451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002035	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	DCTN4	http://www.ncbi.nlm.nih.gov/gene/51164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002036	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	DICER1	http://www.ncbi.nlm.nih.gov/gene/23405	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002037	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	DNMT3A	http://www.ncbi.nlm.nih.gov/gene/1788	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002038	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	DPY19L4	http://www.ncbi.nlm.nih.gov/gene/286148	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002039	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	DSTN	http://www.ncbi.nlm.nih.gov/gene/11034	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002040	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	EIF1AD	http://www.ncbi.nlm.nih.gov/gene/84285	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002041	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	EIF4EBP2	http://www.ncbi.nlm.nih.gov/gene/1979	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002042	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ELK4	http://www.ncbi.nlm.nih.gov/gene/2005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002043	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ENPP4	http://www.ncbi.nlm.nih.gov/gene/22875	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002044	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	EPDR1	http://www.ncbi.nlm.nih.gov/gene/54749	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002045	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ETNK1	http://www.ncbi.nlm.nih.gov/gene/55500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002046	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	FAM160B1	http://www.ncbi.nlm.nih.gov/gene/57700	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002047	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	FBN1	http://www.ncbi.nlm.nih.gov/gene/2200	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002048	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	FNDC3A	http://www.ncbi.nlm.nih.gov/gene/22862	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002049	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	FNDC3B	http://www.ncbi.nlm.nih.gov/gene/64778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002050	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	FOXP2	http://www.ncbi.nlm.nih.gov/gene/93986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002051	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	FZD5	http://www.ncbi.nlm.nih.gov/gene/7855	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002052	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	GAB1	http://www.ncbi.nlm.nih.gov/gene/2549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002053	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	GABPA	http://www.ncbi.nlm.nih.gov/gene/2551	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002054	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	GGA2	http://www.ncbi.nlm.nih.gov/gene/23062	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002055	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	GIT2	http://www.ncbi.nlm.nih.gov/gene/9815	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002056	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	GTF3C4	http://www.ncbi.nlm.nih.gov/gene/9329	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002057	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	HAT1	http://www.ncbi.nlm.nih.gov/gene/8520	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002058	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	HAUS5	http://www.ncbi.nlm.nih.gov/gene/23354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002059	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	HBP1	http://www.ncbi.nlm.nih.gov/gene/26959	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002060	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	HDAC4	http://www.ncbi.nlm.nih.gov/gene/9759	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002061	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	HIF1AN	http://www.ncbi.nlm.nih.gov/gene/55662	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002062	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	HIST1H2BF	http://www.ncbi.nlm.nih.gov/gene/8343	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002063	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	HMGCS1	http://www.ncbi.nlm.nih.gov/gene/3157	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002064	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	IDE	http://www.ncbi.nlm.nih.gov/gene/3416	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002065	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	JHDM1D	http://www.ncbi.nlm.nih.gov/gene/80853	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002066	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	JMJD1C	http://www.ncbi.nlm.nih.gov/gene/221037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002067	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	JMY	http://www.ncbi.nlm.nih.gov/gene/133746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002068	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	KATNAL1	http://www.ncbi.nlm.nih.gov/gene/84056	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002069	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	KDM4A	http://www.ncbi.nlm.nih.gov/gene/9682	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002070	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	KIAA0895	http://www.ncbi.nlm.nih.gov/gene/23366	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002071	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	KIAA0907	http://www.ncbi.nlm.nih.gov/gene/22889	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002072	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	KIAA1712	http://www.ncbi.nlm.nih.gov/gene/80817	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002073	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	KIAA2018	http://www.ncbi.nlm.nih.gov/gene/205717	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002074	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	KPNA5	http://www.ncbi.nlm.nih.gov/gene/3841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002075	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	LARP1	http://www.ncbi.nlm.nih.gov/gene/23367	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002076	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	LMBR1	http://www.ncbi.nlm.nih.gov/gene/64327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002077	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	LRRC57	http://www.ncbi.nlm.nih.gov/gene/255252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002078	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	LTV1	http://www.ncbi.nlm.nih.gov/gene/100128319	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002079	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	LZIC	http://www.ncbi.nlm.nih.gov/gene/84328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002080	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	MACROD2	http://www.ncbi.nlm.nih.gov/gene/140733	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002081	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	MAT2A	http://www.ncbi.nlm.nih.gov/gene/4144	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002082	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	MBNL1	http://www.ncbi.nlm.nih.gov/gene/4154	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002083	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	MBNL2	http://www.ncbi.nlm.nih.gov/gene/10150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002084	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ME2	http://www.ncbi.nlm.nih.gov/gene/4200	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002085	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	MED23	http://www.ncbi.nlm.nih.gov/gene/9439	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002086	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	MFAP3	http://www.ncbi.nlm.nih.gov/gene/4238	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002087	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	MGAT4A	http://www.ncbi.nlm.nih.gov/gene/11320	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002088	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	MIDN	http://www.ncbi.nlm.nih.gov/gene/90007	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002089	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	MLL	http://www.ncbi.nlm.nih.gov/gene/4297	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002090	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	MLL5	http://www.ncbi.nlm.nih.gov/gene/55904	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002091	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	MLLT6	http://www.ncbi.nlm.nih.gov/gene/4302	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002092	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	MORN2	http://www.ncbi.nlm.nih.gov/gene/729967	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002093	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	MPHOSPH8	http://www.ncbi.nlm.nih.gov/gene/54737	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002094	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	MTA3	http://www.ncbi.nlm.nih.gov/gene/57504	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002095	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	N4BP2L1	http://www.ncbi.nlm.nih.gov/gene/90634	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002096	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	NAP1L5	http://www.ncbi.nlm.nih.gov/gene/266812	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002097	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	NCBP2	http://www.ncbi.nlm.nih.gov/gene/22916	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002098	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	NCOR1	http://www.ncbi.nlm.nih.gov/gene/9611	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002099	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	NDUFB2	http://www.ncbi.nlm.nih.gov/gene/4708	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002100	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002101	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	NFS1	http://www.ncbi.nlm.nih.gov/gene/9054	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002102	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	NONO	http://www.ncbi.nlm.nih.gov/gene/4841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002103	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	NOTCH2	http://www.ncbi.nlm.nih.gov/gene/4853	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002104	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	NR3C1	http://www.ncbi.nlm.nih.gov/gene/2908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002105	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002106	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	OCIAD1	http://www.ncbi.nlm.nih.gov/gene/54940	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002107	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	OSGIN2	http://www.ncbi.nlm.nih.gov/gene/734	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002108	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	OTUD1	http://www.ncbi.nlm.nih.gov/gene/220213	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002109	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PAK2	http://www.ncbi.nlm.nih.gov/gene/5062	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002110	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PALM2-AKAP2	http://www.ncbi.nlm.nih.gov/gene/114299	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002111	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PCGF5	http://www.ncbi.nlm.nih.gov/gene/84333	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002112	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PER2	http://www.ncbi.nlm.nih.gov/gene/8864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002113	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PHLPP2	http://www.ncbi.nlm.nih.gov/gene/23035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002114	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PIGM	http://www.ncbi.nlm.nih.gov/gene/93183	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002115	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PIK3C2A	http://www.ncbi.nlm.nih.gov/gene/5286	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002116	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PIK3C2B	http://www.ncbi.nlm.nih.gov/gene/5287	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002117	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PIKFYVE	http://www.ncbi.nlm.nih.gov/gene/200576	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002118	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PLCXD2	http://www.ncbi.nlm.nih.gov/gene/90102	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002119	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PLRG1	http://www.ncbi.nlm.nih.gov/gene/5356	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002120	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PM20D2	http://www.ncbi.nlm.nih.gov/gene/135293	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002121	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PNPT1	http://www.ncbi.nlm.nih.gov/gene/87178	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002122	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	POLR1B	http://www.ncbi.nlm.nih.gov/gene/84172	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002123	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002124	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PPARA	http://www.ncbi.nlm.nih.gov/gene/5465	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002125	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PPIG	http://www.ncbi.nlm.nih.gov/gene/9360	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002126	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PPP1CB	http://www.ncbi.nlm.nih.gov/gene/245711	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002127	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PPP1CC	http://www.ncbi.nlm.nih.gov/gene/5501	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002128	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PPP1R12A	http://www.ncbi.nlm.nih.gov/gene/4659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002129	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PPP2R5C	http://www.ncbi.nlm.nih.gov/gene/5527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002130	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PRDM1	http://www.ncbi.nlm.nih.gov/gene/639	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002131	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PRDM10	http://www.ncbi.nlm.nih.gov/gene/56980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002132	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PREPL	http://www.ncbi.nlm.nih.gov/gene/9581	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002133	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PRKAA1	http://www.ncbi.nlm.nih.gov/gene/5562	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002134	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PSTK	http://www.ncbi.nlm.nih.gov/gene/118672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002135	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PTBP2	http://www.ncbi.nlm.nih.gov/gene/58155	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002136	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PTCD3	http://www.ncbi.nlm.nih.gov/gene/55037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002137	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PTTG1IP	http://www.ncbi.nlm.nih.gov/gene/754	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002138	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PUM2	http://www.ncbi.nlm.nih.gov/gene/23369	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002139	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	PXMP3	http://www.ncbi.nlm.nih.gov/gene/5828 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002140	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	RAB10	http://www.ncbi.nlm.nih.gov/gene/10890	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002141	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	RAB11A	http://www.ncbi.nlm.nih.gov/gene/8766	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002142	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	RAB5B	http://www.ncbi.nlm.nih.gov/gene/5869	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002143	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	RAPGEF5	http://www.ncbi.nlm.nih.gov/gene/9771	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002144	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	RBBP9	http://www.ncbi.nlm.nih.gov/gene/10741	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002145	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	RBM4	http://www.ncbi.nlm.nih.gov/gene/10432	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002146	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	RNF111	http://www.ncbi.nlm.nih.gov/gene/54778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002147	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	RNF166	http://www.ncbi.nlm.nih.gov/gene/115992	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002148	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	SCAMP4	http://www.ncbi.nlm.nih.gov/gene/113178	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002149	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	SEC61A2	http://www.ncbi.nlm.nih.gov/gene/55176	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002150	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	SFRS11	http://www.ncbi.nlm.nih.gov/gene/9295	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002151	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	SFT2D2	http://www.ncbi.nlm.nih.gov/gene/375035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002152	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	SLC19A2	http://www.ncbi.nlm.nih.gov/gene/10560	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002153	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	SLC25A40	http://www.ncbi.nlm.nih.gov/gene/55972	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002154	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	SLC35F5	http://www.ncbi.nlm.nih.gov/gene/80255	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002155	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	SLC38A1	http://www.ncbi.nlm.nih.gov/gene/81539	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002156	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	SLC41A1	http://www.ncbi.nlm.nih.gov/gene/254428	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002157	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	SLC41A3	http://www.ncbi.nlm.nih.gov/gene/54946	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002158	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	SMAD4	http://www.ncbi.nlm.nih.gov/gene/4089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002159	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	SNX18	http://www.ncbi.nlm.nih.gov/gene/112574	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002160	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	SR140	http://www.ncbi.nlm.nih.gov/gene/23350	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002161	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	SSR1	http://www.ncbi.nlm.nih.gov/gene/6745	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002162	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	STARD4	http://www.ncbi.nlm.nih.gov/gene/134429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002163	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	STK3	http://www.ncbi.nlm.nih.gov/gene/6788	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002164	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	STRN3	http://www.ncbi.nlm.nih.gov/gene/29966	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002165	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	SUSD2	http://www.ncbi.nlm.nih.gov/gene/56241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002166	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	SYNJ1	http://www.ncbi.nlm.nih.gov/gene/8867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002167	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	TAF6	http://www.ncbi.nlm.nih.gov/gene/6878	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002168	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	TBCEL	http://www.ncbi.nlm.nih.gov/gene/219899	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002169	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	THAP2	http://www.ncbi.nlm.nih.gov/gene/83591	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002170	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	TMOD3	http://www.ncbi.nlm.nih.gov/gene/29766	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002171	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	TNFSF9	http://www.ncbi.nlm.nih.gov/gene/8744	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002172	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	TNPO1	http://www.ncbi.nlm.nih.gov/gene/3842	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002173	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	TOLLIP	http://www.ncbi.nlm.nih.gov/gene/54472	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002174	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002175	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	TRIM4	http://www.ncbi.nlm.nih.gov/gene/89122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002176	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	TRIO	http://www.ncbi.nlm.nih.gov/gene/7204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002177	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	TSPYL1	http://www.ncbi.nlm.nih.gov/gene/7259	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002178	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	TTC35	http://www.ncbi.nlm.nih.gov/gene/9694	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002179	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	TYW3	http://www.ncbi.nlm.nih.gov/gene/127253	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002180	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	UBFD1	http://www.ncbi.nlm.nih.gov/gene/56061	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002181	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	UBN1	http://www.ncbi.nlm.nih.gov/gene/29855	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002182	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	UBXN2A	http://www.ncbi.nlm.nih.gov/gene/165324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002183	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	UHMK1	http://www.ncbi.nlm.nih.gov/gene/127933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002184	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	UNC84A	http://www.ncbi.nlm.nih.gov/gene/23353 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002185	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	UPF1	http://www.ncbi.nlm.nih.gov/gene/5976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002186	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	USP2	http://www.ncbi.nlm.nih.gov/gene/9099	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002187	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	WDR12	http://www.ncbi.nlm.nih.gov/gene/55759	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002188	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	XPR1	http://www.ncbi.nlm.nih.gov/gene/9213	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002189	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	XRCC5	http://www.ncbi.nlm.nih.gov/gene/7520	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002190	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	YEATS4	http://www.ncbi.nlm.nih.gov/gene/8089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002191	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ZBTB34	http://www.ncbi.nlm.nih.gov/gene/403341	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002192	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ZBTB6	http://www.ncbi.nlm.nih.gov/gene/10773	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002193	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ZC3H15	http://www.ncbi.nlm.nih.gov/gene/55854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002194	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ZCCHC8	http://www.ncbi.nlm.nih.gov/gene/55596	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002195	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ZKSCAN1	http://www.ncbi.nlm.nih.gov/gene/7586	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002196	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ZNF124	http://www.ncbi.nlm.nih.gov/gene/7678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002197	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ZNF468	http://www.ncbi.nlm.nih.gov/gene/90333	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002198	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ZNF543	http://www.ncbi.nlm.nih.gov/gene/125919	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002199	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ZNF551	http://www.ncbi.nlm.nih.gov/gene/90233	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002200	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ZNF592	http://www.ncbi.nlm.nih.gov/gene/9640	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002201	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ZNF644	http://www.ncbi.nlm.nih.gov/gene/84146	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002202	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ZNF655	http://www.ncbi.nlm.nih.gov/gene/79027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002203	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ZNF680	http://www.ncbi.nlm.nih.gov/gene/340252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002204	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ZNF700	http://www.ncbi.nlm.nih.gov/gene/90592	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002205	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ZNF765	http://www.ncbi.nlm.nih.gov/gene/91661	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002206	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-3p(ebv-mir-bart20-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003720	BC-1	-	Host	mRNA	ZNF770	http://www.ncbi.nlm.nih.gov/gene/54989	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002207	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	ACTR3	http://www.ncbi.nlm.nih.gov/gene/10096	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002208	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	ADIPOR1	http://www.ncbi.nlm.nih.gov/gene/51094	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002209	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	ATP2B4	http://www.ncbi.nlm.nih.gov/gene/493	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002210	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	BTN2A2	http://www.ncbi.nlm.nih.gov/gene/10385	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002211	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	C11orf59	http://www.ncbi.nlm.nih.gov/gene/55004	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002212	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	C1orf2	http://www.ncbi.nlm.nih.gov/gene/10712 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002213	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	C5orf51	http://www.ncbi.nlm.nih.gov/gene/285636	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002214	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	CD59	http://www.ncbi.nlm.nih.gov/gene/966	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002215	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	CENPB	http://www.ncbi.nlm.nih.gov/gene/1059	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002216	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	CHD9	http://www.ncbi.nlm.nih.gov/gene/80205	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002217	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	COX6B1	http://www.ncbi.nlm.nih.gov/gene/1340	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002218	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	DCP2	http://www.ncbi.nlm.nih.gov/gene/167227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002219	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	FAM33A	http://www.ncbi.nlm.nih.gov/gene/348235 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002220	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	HIPK1	http://www.ncbi.nlm.nih.gov/gene/204851	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002221	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	IRF1	http://www.ncbi.nlm.nih.gov/gene/3659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002222	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	ITFG3	http://www.ncbi.nlm.nih.gov/gene/83986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002223	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	KDELR2	http://www.ncbi.nlm.nih.gov/gene/11014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002224	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	KIF5B	http://www.ncbi.nlm.nih.gov/gene/3799	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002225	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	MAX	http://www.ncbi.nlm.nih.gov/gene/4149	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002226	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	MTHFD2	http://www.ncbi.nlm.nih.gov/gene/10797	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002227	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	NBR1	http://www.ncbi.nlm.nih.gov/gene/4077	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002228	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	NUCKS1	http://www.ncbi.nlm.nih.gov/gene/64710	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002229	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	PAN3	http://www.ncbi.nlm.nih.gov/gene/255967	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002230	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	PRPF38A	http://www.ncbi.nlm.nih.gov/gene/84950	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002231	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	PTP4A1	http://www.ncbi.nlm.nih.gov/gene/7803	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002232	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	REST	http://www.ncbi.nlm.nih.gov/gene/5978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002233	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	SEMA3D	http://www.ncbi.nlm.nih.gov/gene/223117	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002234	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	SERBP1	http://www.ncbi.nlm.nih.gov/gene/26135	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002235	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	SMG1	http://www.ncbi.nlm.nih.gov/gene/23049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002236	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	TRIM13	http://www.ncbi.nlm.nih.gov/gene/10206	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002237	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	TRIM14	http://www.ncbi.nlm.nih.gov/gene/9830	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002238	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	TXNRD1	http://www.ncbi.nlm.nih.gov/gene/7296	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002239	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	UBXN2B	http://www.ncbi.nlm.nih.gov/gene/137886	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002240	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	UQCRB	http://www.ncbi.nlm.nih.gov/gene/442454	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002241	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	ZFP91	http://www.ncbi.nlm.nih.gov/gene/386607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002242	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	ZNF436	http://www.ncbi.nlm.nih.gov/gene/80818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002243	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	ZSCAN12	http://www.ncbi.nlm.nih.gov/gene/9753	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002244	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(ebv-mir-bart20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	BC-1	-	Host	mRNA	ZSWIM1	http://www.ncbi.nlm.nih.gov/gene/90204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002245	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(miR-BART20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	lymphoma cell lines	-	Host	Protein	TBX21(T-bet)	http://www.ncbi.nlm.nih.gov/gene/30009	Downregulation	quantitative real-time RT-PCR.	23608226	Taken together, we conclude that EBV-encoded miR-BART20-5p inhibits T-bet translation with secondary suppression of p53 in invasive nasal NK/T-cell lymphoma.
VHID00002246	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ABHD4	http://www.ncbi.nlm.nih.gov/gene/63874	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002247	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ABL2	http://www.ncbi.nlm.nih.gov/gene/27	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002248	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ADRB1	http://www.ncbi.nlm.nih.gov/gene/153	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002249	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ANKHD1	http://www.ncbi.nlm.nih.gov/gene/8637	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002250	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ANKIB1	http://www.ncbi.nlm.nih.gov/gene/54467	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002251	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ANKRD28	http://www.ncbi.nlm.nih.gov/gene/23243	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002252	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ANXA5	http://www.ncbi.nlm.nih.gov/gene/308	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002253	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ARHGAP19	http://www.ncbi.nlm.nih.gov/gene/84986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002254	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ARMC8	http://www.ncbi.nlm.nih.gov/gene/25852	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002255	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ARPP19	http://www.ncbi.nlm.nih.gov/gene/646227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002256	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ASF1A	http://www.ncbi.nlm.nih.gov/gene/25842	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002257	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ASXL2	http://www.ncbi.nlm.nih.gov/gene/55252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002258	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ATL2	http://www.ncbi.nlm.nih.gov/gene/64225	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002259	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	BAZ2A	http://www.ncbi.nlm.nih.gov/gene/11176	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002260	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	BCOR	http://www.ncbi.nlm.nih.gov/gene/54880	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002261	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	BIRC6	http://www.ncbi.nlm.nih.gov/gene/57448	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002262	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	BMI1	http://www.ncbi.nlm.nih.gov/gene/648	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002263	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	BRCA2	http://www.ncbi.nlm.nih.gov/gene/675	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002264	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	C12orf5	http://www.ncbi.nlm.nih.gov/gene/57103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002265	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	C14orf129	http://www.ncbi.nlm.nih.gov/gene/51527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002266	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	C1orf58	http://www.ncbi.nlm.nih.gov/gene/148362	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002267	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	C3orf23	http://www.ncbi.nlm.nih.gov/gene/285343	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002268	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	C4orf46	http://www.ncbi.nlm.nih.gov/gene/201725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002269	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	C5orf22	http://www.ncbi.nlm.nih.gov/gene/55322	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002270	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	C6orf162	http://www.ncbi.nlm.nih.gov/gene/57150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002271	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	C8orf37	http://www.ncbi.nlm.nih.gov/gene/157657	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002272	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	C8orf84	http://www.ncbi.nlm.nih.gov/gene/157869	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002273	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	C9orf5	http://www.ncbi.nlm.nih.gov/gene/23731	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002274	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	CAV1	http://www.ncbi.nlm.nih.gov/gene/857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002275	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	CCDC88A	http://www.ncbi.nlm.nih.gov/gene/55704	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002276	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	CDC73	http://www.ncbi.nlm.nih.gov/gene/79577	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002277	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	CEP68	http://www.ncbi.nlm.nih.gov/gene/23177	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002278	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	CHD2	http://www.ncbi.nlm.nih.gov/gene/1106	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002279	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	CHML	http://www.ncbi.nlm.nih.gov/gene/1122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002280	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	CKAP5	http://www.ncbi.nlm.nih.gov/gene/9793	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002281	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	CLDND1	http://www.ncbi.nlm.nih.gov/gene/56650	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002282	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	CLEC2D	http://www.ncbi.nlm.nih.gov/gene/29121	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002283	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	CLIC4	http://www.ncbi.nlm.nih.gov/gene/25932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002284	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	COL4A3BP	http://www.ncbi.nlm.nih.gov/gene/10087	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002285	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	COPS8	http://www.ncbi.nlm.nih.gov/gene/10920	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002286	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	CREBL2	http://www.ncbi.nlm.nih.gov/gene/1389	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002287	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	CRYZL1	http://www.ncbi.nlm.nih.gov/gene/9946	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002288	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	CTCF	http://www.ncbi.nlm.nih.gov/gene/10664	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002289	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	DCAF7	http://www.ncbi.nlm.nih.gov/gene/10238	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002290	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	DCUN1D1	http://www.ncbi.nlm.nih.gov/gene/54165	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002291	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	DIXDC1	http://www.ncbi.nlm.nih.gov/gene/85458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002292	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	DPY19L4	http://www.ncbi.nlm.nih.gov/gene/286148	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002293	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	DSE	http://www.ncbi.nlm.nih.gov/gene/29940	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002294	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	E2F7	http://www.ncbi.nlm.nih.gov/gene/144455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002295	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ECHDC1	http://www.ncbi.nlm.nih.gov/gene/55862	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002296	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	EDEM3	http://www.ncbi.nlm.nih.gov/gene/80267	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002297	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	EIF1	http://www.ncbi.nlm.nih.gov/gene/730144	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002298	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	EIF2AK3	http://www.ncbi.nlm.nih.gov/gene/9451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002299	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	EIF3L	http://www.ncbi.nlm.nih.gov/gene/51386	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002300	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	EIF4G1	http://www.ncbi.nlm.nih.gov/gene/1981	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002301	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ELK4	http://www.ncbi.nlm.nih.gov/gene/2005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002302	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ERCC6	http://www.ncbi.nlm.nih.gov/gene/2074	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002303	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ETNK1	http://www.ncbi.nlm.nih.gov/gene/55500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002304	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	EYA1	http://www.ncbi.nlm.nih.gov/gene/2138	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002305	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	EZH2	http://www.ncbi.nlm.nih.gov/gene/2146	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002306	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	FAM8A1	http://www.ncbi.nlm.nih.gov/gene/51439	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002307	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	FAM96A	http://www.ncbi.nlm.nih.gov/gene/84191	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002308	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	FBXO30	http://www.ncbi.nlm.nih.gov/gene/84085	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002309	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	FBXO45	http://www.ncbi.nlm.nih.gov/gene/200933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002310	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	FCHSD2	http://www.ncbi.nlm.nih.gov/gene/9873	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002311	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	FUNDC1	http://www.ncbi.nlm.nih.gov/gene/139341	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002312	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	FUSIP1	http://www.ncbi.nlm.nih.gov/gene/10772 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002313	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	FXC1	http://www.ncbi.nlm.nih.gov/gene/26515	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002314	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	FYN	http://www.ncbi.nlm.nih.gov/gene/2534	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002315	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	GAB1	http://www.ncbi.nlm.nih.gov/gene/2549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002316	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	GORASP2	http://www.ncbi.nlm.nih.gov/gene/26003	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002317	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	GPHN	http://www.ncbi.nlm.nih.gov/gene/10243	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002318	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	HACL1	http://www.ncbi.nlm.nih.gov/gene/26061	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002319	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	HECA	http://www.ncbi.nlm.nih.gov/gene/51696	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002320	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ILF2	http://www.ncbi.nlm.nih.gov/gene/3608	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002321	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	IMPA1	http://www.ncbi.nlm.nih.gov/gene/3612	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002322	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	IMPAD1	http://www.ncbi.nlm.nih.gov/gene/54928	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002323	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ITSN1	http://www.ncbi.nlm.nih.gov/gene/6453	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002324	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	KAT2B	http://www.ncbi.nlm.nih.gov/gene/8850	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002325	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	KIAA1432	http://www.ncbi.nlm.nih.gov/gene/57589	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002326	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	KIAA1967	http://www.ncbi.nlm.nih.gov/gene/57805	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002327	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	KIF5B	http://www.ncbi.nlm.nih.gov/gene/3799	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002328	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	KPNA1	http://www.ncbi.nlm.nih.gov/gene/3836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002329	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	LIN28B	http://www.ncbi.nlm.nih.gov/gene/389421	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002330	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	LRP1	http://www.ncbi.nlm.nih.gov/gene/4035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002331	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	LRRC8B	http://www.ncbi.nlm.nih.gov/gene/23507	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002332	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	LSM14A	http://www.ncbi.nlm.nih.gov/gene/26065	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002333	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	MAN1A2	http://www.ncbi.nlm.nih.gov/gene/10905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002334	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	MBNL2	http://www.ncbi.nlm.nih.gov/gene/10150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002335	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	MCFD2	http://www.ncbi.nlm.nih.gov/gene/90411	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002336	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	MCM2	http://www.ncbi.nlm.nih.gov/gene/4171	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002337	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	MEX3C	http://www.ncbi.nlm.nih.gov/gene/51320	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002338	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	MITF	http://www.ncbi.nlm.nih.gov/gene/4286	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002339	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	MOBKL3	http://www.ncbi.nlm.nih.gov/gene/25843	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002340	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	MORC3	http://www.ncbi.nlm.nih.gov/gene/23515	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002341	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	MOSPD2	http://www.ncbi.nlm.nih.gov/gene/158747	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002342	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	MRPS31	http://www.ncbi.nlm.nih.gov/gene/10240	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002343	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	MSL2	http://www.ncbi.nlm.nih.gov/gene/55167	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002344	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	MTMR14	http://www.ncbi.nlm.nih.gov/gene/64419	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002345	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	MTPN	http://www.ncbi.nlm.nih.gov/gene/767558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002346	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	NETO2	http://www.ncbi.nlm.nih.gov/gene/81831	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002347	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	NFIA	http://www.ncbi.nlm.nih.gov/gene/4774	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002348	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	NHLRC3	http://www.ncbi.nlm.nih.gov/gene/387921	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002349	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	NOTCH2	http://www.ncbi.nlm.nih.gov/gene/4853	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002350	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	NUB1	http://www.ncbi.nlm.nih.gov/gene/51667	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002351	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	OBFC2A	http://www.ncbi.nlm.nih.gov/gene/64859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002352	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	OGT	http://www.ncbi.nlm.nih.gov/gene/8473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002353	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	OSBP	http://www.ncbi.nlm.nih.gov/gene/5007	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002354	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	OSTC	http://www.ncbi.nlm.nih.gov/gene/646567	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002355	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	OTUD6B	http://www.ncbi.nlm.nih.gov/gene/51633	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002356	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	OTUD7B	http://www.ncbi.nlm.nih.gov/gene/56957	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002357	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PACRGL	http://www.ncbi.nlm.nih.gov/gene/133015	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002358	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PALM2-AKAP2	http://www.ncbi.nlm.nih.gov/gene/114299	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002359	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PANK3	http://www.ncbi.nlm.nih.gov/gene/79646	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002360	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PCGF3	http://www.ncbi.nlm.nih.gov/gene/10336	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002361	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PCMTD2	http://www.ncbi.nlm.nih.gov/gene/55251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002362	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PCTK1	http://www.ncbi.nlm.nih.gov/gene/5127 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002363	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PDPR	http://www.ncbi.nlm.nih.gov/gene/55066	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002364	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PK4P	#	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002365	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PLEKHF2	http://www.ncbi.nlm.nih.gov/gene/79666	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002366	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	POT1	http://www.ncbi.nlm.nih.gov/gene/25913	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002367	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002368	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PPAP2B	http://www.ncbi.nlm.nih.gov/gene/8613	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002369	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PPT1	http://www.ncbi.nlm.nih.gov/gene/5538	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002370	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PRKAB2	http://www.ncbi.nlm.nih.gov/gene/5565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002371	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PRPSAP2	http://www.ncbi.nlm.nih.gov/gene/5636	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002372	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PSMD12	http://www.ncbi.nlm.nih.gov/gene/5718	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002373	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PSME4	http://www.ncbi.nlm.nih.gov/gene/23198	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002374	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PSTK	http://www.ncbi.nlm.nih.gov/gene/118672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002375	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PTEN	http://www.ncbi.nlm.nih.gov/gene/11191	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002376	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	PURA	http://www.ncbi.nlm.nih.gov/gene/5813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002377	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	QKI	http://www.ncbi.nlm.nih.gov/gene/9444	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002378	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	RAB14	http://www.ncbi.nlm.nih.gov/gene/51552	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002379	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	RAB3GAP2	http://www.ncbi.nlm.nih.gov/gene/25782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002380	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	RC3H1	http://www.ncbi.nlm.nih.gov/gene/149041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002381	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	RELL1	http://www.ncbi.nlm.nih.gov/gene/768211	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002382	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	RERE	http://www.ncbi.nlm.nih.gov/gene/473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002383	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	RHOU	http://www.ncbi.nlm.nih.gov/gene/58480	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002384	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	RNF111	http://www.ncbi.nlm.nih.gov/gene/54778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002385	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	RNF160	http://www.ncbi.nlm.nih.gov/gene/26046	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002386	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002387	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	RRM2B	http://www.ncbi.nlm.nih.gov/gene/50484	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002388	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	SETD5	http://www.ncbi.nlm.nih.gov/gene/55209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002389	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	SLC16A14	http://www.ncbi.nlm.nih.gov/gene/151473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002390	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	SLC30A7	http://www.ncbi.nlm.nih.gov/gene/148867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002391	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	SLC38A1	http://www.ncbi.nlm.nih.gov/gene/81539	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002392	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	SLC9A6	http://www.ncbi.nlm.nih.gov/gene/10479	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002393	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	SLMO2	http://www.ncbi.nlm.nih.gov/gene/51012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002394	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	SMEK1	http://www.ncbi.nlm.nih.gov/gene/55671	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002395	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	SPRED1	http://www.ncbi.nlm.nih.gov/gene/161742	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002396	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	SSFA2	http://www.ncbi.nlm.nih.gov/gene/6744	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002397	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	STAM	http://www.ncbi.nlm.nih.gov/gene/8027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002398	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	STAT1	http://www.ncbi.nlm.nih.gov/gene/6772	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002399	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	TANC1	http://www.ncbi.nlm.nih.gov/gene/85461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002400	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	TANC2	http://www.ncbi.nlm.nih.gov/gene/26115	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002401	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	TBC1D25	http://www.ncbi.nlm.nih.gov/gene/4943	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002402	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	TMCC1	http://www.ncbi.nlm.nih.gov/gene/23023	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002403	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	TMEM135	http://www.ncbi.nlm.nih.gov/gene/65084	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002404	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	TMEM20	http://www.ncbi.nlm.nih.gov/gene/159371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002405	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	TMEM64	http://www.ncbi.nlm.nih.gov/gene/169200	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002406	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002407	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	TPM4	http://www.ncbi.nlm.nih.gov/gene/7171	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002408	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	TRA2B	http://www.ncbi.nlm.nih.gov/gene/6434	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002409	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	TRAK2	http://www.ncbi.nlm.nih.gov/gene/66008	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002410	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	TRIAP1	http://www.ncbi.nlm.nih.gov/gene/51499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002411	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	TRIM38	http://www.ncbi.nlm.nih.gov/gene/10475	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002412	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	TRIM4	http://www.ncbi.nlm.nih.gov/gene/89122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002413	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	TRUB1	http://www.ncbi.nlm.nih.gov/gene/142940	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002414	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	TUSC2	http://www.ncbi.nlm.nih.gov/gene/11334	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002415	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	UBE2R2	http://www.ncbi.nlm.nih.gov/gene/54926	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002416	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	UBE2W	http://www.ncbi.nlm.nih.gov/gene/55284	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002417	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	UBTD2	http://www.ncbi.nlm.nih.gov/gene/92181	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002418	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	UBXN4	http://www.ncbi.nlm.nih.gov/gene/23190	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002419	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	UCHL3	http://www.ncbi.nlm.nih.gov/gene/7347	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002420	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	USP28	http://www.ncbi.nlm.nih.gov/gene/57646	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002421	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	USP3	http://www.ncbi.nlm.nih.gov/gene/9960	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002422	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	VANGL1	http://www.ncbi.nlm.nih.gov/gene/81839	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002423	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	WASL	http://www.ncbi.nlm.nih.gov/gene/8976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002424	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	WDR33	http://www.ncbi.nlm.nih.gov/gene/55339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002425	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	WDR48	http://www.ncbi.nlm.nih.gov/gene/57599	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002426	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	XIAP	http://www.ncbi.nlm.nih.gov/gene/331	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002427	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	XPO1	http://www.ncbi.nlm.nih.gov/gene/7514	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002428	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	YIPF6	http://www.ncbi.nlm.nih.gov/gene/286451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002429	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ZCCHC3	http://www.ncbi.nlm.nih.gov/gene/85364	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002430	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ZFAND6	http://www.ncbi.nlm.nih.gov/gene/54469	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002431	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ZFR	http://www.ncbi.nlm.nih.gov/gene/51663	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002432	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ZKSCAN1	http://www.ncbi.nlm.nih.gov/gene/7586	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002433	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ZNF146	http://www.ncbi.nlm.nih.gov/gene/7705	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002434	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ZNF202	http://www.ncbi.nlm.nih.gov/gene/7753	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002435	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ZNF28	http://www.ncbi.nlm.nih.gov/gene/7576	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002436	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ZNF295	http://www.ncbi.nlm.nih.gov/gene/49854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002437	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ZNF33B	http://www.ncbi.nlm.nih.gov/gene/7582	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002438	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-3p(ebv-mir-bart21-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010131	BC-1	-	Host	mRNA	ZNF548	http://www.ncbi.nlm.nih.gov/gene/147694	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002439	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	SEPT2		-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002440	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	MARCH7		-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002441	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	ACBD3	http://www.ncbi.nlm.nih.gov/gene/64746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002442	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	AEBP2	http://www.ncbi.nlm.nih.gov/gene/121536	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002443	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	ARL4A	http://www.ncbi.nlm.nih.gov/gene/10124	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002444	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	C14orf28	http://www.ncbi.nlm.nih.gov/gene/122525	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002445	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	C16orf88	http://www.ncbi.nlm.nih.gov/gene/400506	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002446	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	C5orf51	http://www.ncbi.nlm.nih.gov/gene/285636	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002447	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	CAPZA1	http://www.ncbi.nlm.nih.gov/gene/829	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002448	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	CBX3	http://www.ncbi.nlm.nih.gov/gene/11335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002449	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	CHD2	http://www.ncbi.nlm.nih.gov/gene/1106	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002450	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	DAZAP2	http://www.ncbi.nlm.nih.gov/gene/9802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002451	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	FAM126A	http://www.ncbi.nlm.nih.gov/gene/84668	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002452	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	FAM46C	http://www.ncbi.nlm.nih.gov/gene/54855	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002453	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	FBXO21	http://www.ncbi.nlm.nih.gov/gene/23014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002454	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	FXR1	http://www.ncbi.nlm.nih.gov/gene/8087	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002455	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	GTF2B	http://www.ncbi.nlm.nih.gov/gene/2959	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002456	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	HECTD1	http://www.ncbi.nlm.nih.gov/gene/25831	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002457	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	HNRNPU	http://www.ncbi.nlm.nih.gov/gene/3192	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002458	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	INO80D	http://www.ncbi.nlm.nih.gov/gene/54891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002459	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	MTRR	http://www.ncbi.nlm.nih.gov/gene/4552	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002460	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	NAT13	http://www.ncbi.nlm.nih.gov/gene/80218 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002461	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	NSL1	http://www.ncbi.nlm.nih.gov/gene/25936	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002462	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	NUP35	http://www.ncbi.nlm.nih.gov/gene/129401	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002463	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	OTUD4	http://www.ncbi.nlm.nih.gov/gene/54726	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002464	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	PGRMC1	http://www.ncbi.nlm.nih.gov/gene/10857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002465	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	PLAG1	http://www.ncbi.nlm.nih.gov/gene/5324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002466	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	PLIN	http://www.ncbi.nlm.nih.gov/gene/5346 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002467	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	RAB10	http://www.ncbi.nlm.nih.gov/gene/10890	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002468	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	RIT1	http://www.ncbi.nlm.nih.gov/gene/6016	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002469	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	SLAIN2	http://www.ncbi.nlm.nih.gov/gene/57606	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002470	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	SLC19A2	http://www.ncbi.nlm.nih.gov/gene/10560	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002471	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	SLC30A6	http://www.ncbi.nlm.nih.gov/gene/55676	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002472	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	SOCS4	http://www.ncbi.nlm.nih.gov/gene/122809	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002473	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	THOC7	http://www.ncbi.nlm.nih.gov/gene/80145	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002474	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	WDR1	http://www.ncbi.nlm.nih.gov/gene/9948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002475	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	WNK1	http://www.ncbi.nlm.nih.gov/gene/65125	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002476	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	ZNF225	http://www.ncbi.nlm.nih.gov/gene/7768	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002477	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	ZNF295	http://www.ncbi.nlm.nih.gov/gene/49854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002478	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	ZNF317	http://www.ncbi.nlm.nih.gov/gene/57693	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002479	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART21-5p(ebv-mir-bart21-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0010130	BC-1	-	Host	mRNA	ZNF680	http://www.ncbi.nlm.nih.gov/gene/340252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002480	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	BNC2	http://www.ncbi.nlm.nih.gov/gene/54796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002481	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	CLCC1	http://www.ncbi.nlm.nih.gov/gene/23155	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002482	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	CPEB2	http://www.ncbi.nlm.nih.gov/gene/132864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002483	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	DSTYK	http://www.ncbi.nlm.nih.gov/gene/25778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002484	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	EEF1A1	http://www.ncbi.nlm.nih.gov/gene/441032	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002485	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	ETHE1	http://www.ncbi.nlm.nih.gov/gene/23474	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002486	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	FRRS1	http://www.ncbi.nlm.nih.gov/gene/391059	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002487	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	GALNT10	http://www.ncbi.nlm.nih.gov/gene/55568	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002488	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	GPSM2	http://www.ncbi.nlm.nih.gov/gene/29899	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002489	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	HADHB	http://www.ncbi.nlm.nih.gov/gene/3032	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002490	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	IGF1R	http://www.ncbi.nlm.nih.gov/gene/3480	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002491	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	ITGA5	http://www.ncbi.nlm.nih.gov/gene/3678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002492	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	KBTBD8	http://www.ncbi.nlm.nih.gov/gene/84541	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002493	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	LCOR	http://www.ncbi.nlm.nih.gov/gene/84458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002494	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	LMBR1	http://www.ncbi.nlm.nih.gov/gene/64327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002495	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	MMD	http://www.ncbi.nlm.nih.gov/gene/23531	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002496	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	MTMR1	http://www.ncbi.nlm.nih.gov/gene/8776	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002497	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	NFATC3	http://www.ncbi.nlm.nih.gov/gene/4775	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002498	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	NFYC	http://www.ncbi.nlm.nih.gov/gene/4802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002499	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	RAB5A	http://www.ncbi.nlm.nih.gov/gene/5868	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002500	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	RNF157	http://www.ncbi.nlm.nih.gov/gene/114804	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002501	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002502	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	SLC37A3	http://www.ncbi.nlm.nih.gov/gene/84255	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002503	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	TRIB1	http://www.ncbi.nlm.nih.gov/gene/10221	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002504	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	TROVE2	http://www.ncbi.nlm.nih.gov/gene/6738	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002505	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	UBN2	http://www.ncbi.nlm.nih.gov/gene/254048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002506	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	VHL	http://www.ncbi.nlm.nih.gov/gene/7428	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002507	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	WDR43	http://www.ncbi.nlm.nih.gov/gene/23160	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002508	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	ZFAND5	http://www.ncbi.nlm.nih.gov/gene/732229	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002509	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	BC-1	-	Host	mRNA	ZKSCAN1	http://www.ncbi.nlm.nih.gov/gene/7586	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002510	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	Lymphoblastoid cell lines	-	Host	mRNA	BARD1	http://www.ncbi.nlm.nih.gov/gene/580	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002511	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	Lymphoblastoid cell lines	-	Host	mRNA	EEF1A1	http://www.ncbi.nlm.nih.gov/gene/441032	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002512	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	Lymphoblastoid cell lines	-	Host	mRNA	ETHE1	http://www.ncbi.nlm.nih.gov/gene/23474	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002513	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	Lymphoblastoid cell lines	-	Host	mRNA	FRRS1	http://www.ncbi.nlm.nih.gov/gene/391059	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002514	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	Lymphoblastoid cell lines	-	Host	mRNA	HADHB	http://www.ncbi.nlm.nih.gov/gene/3032	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002515	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	Lymphoblastoid cell lines	-	Host	mRNA	MMD	http://www.ncbi.nlm.nih.gov/gene/23531	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002516	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	Lymphoblastoid cell lines	-	Host	mRNA	TROVE2	http://www.ncbi.nlm.nih.gov/gene/6738	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002517	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(ebv-mir-bart3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	Lymphoblastoid cell lines	-	Host	mRNA	ZFAND5	http://www.ncbi.nlm.nih.gov/gene/732229	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002518	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	AAK1	http://www.ncbi.nlm.nih.gov/gene/22848	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002519	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	ADPGK	http://www.ncbi.nlm.nih.gov/gene/83440	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002520	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	ARFGEF2	http://www.ncbi.nlm.nih.gov/gene/10564	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002521	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	BCL2L11	http://www.ncbi.nlm.nih.gov/gene/10018	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002522	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	BRMS1L	http://www.ncbi.nlm.nih.gov/gene/84312	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002523	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	C1orf55	http://www.ncbi.nlm.nih.gov/gene/163859	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002524	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	CDV3	http://www.ncbi.nlm.nih.gov/gene/55573	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002525	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	COMMD10	http://www.ncbi.nlm.nih.gov/gene/51397	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002526	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	CPT2	http://www.ncbi.nlm.nih.gov/gene/1376	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002527	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	DHX40	http://www.ncbi.nlm.nih.gov/gene/100134387	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002528	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	E2F3	http://www.ncbi.nlm.nih.gov/gene/1871	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002529	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	ERCC6	http://www.ncbi.nlm.nih.gov/gene/2074	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002530	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	FLJ40142	http://www.ncbi.nlm.nih.gov/gene/400073 	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002531	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	FNBP4	http://www.ncbi.nlm.nih.gov/gene/23360	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002532	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	HBP1	http://www.ncbi.nlm.nih.gov/gene/26959	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002533	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	KIAA1826	http://www.ncbi.nlm.nih.gov/gene/84437	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002534	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	MIB1	http://www.ncbi.nlm.nih.gov/gene/57534	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002535	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	PANK3	http://www.ncbi.nlm.nih.gov/gene/79646	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002536	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	POU2AF1	http://www.ncbi.nlm.nih.gov/gene/5450	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002537	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	RCOR1	http://www.ncbi.nlm.nih.gov/gene/23186	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002538	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	RNF160	http://www.ncbi.nlm.nih.gov/gene/26046	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002539	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	SLC7A1	http://www.ncbi.nlm.nih.gov/gene/6541	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002540	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	SMC2	http://www.ncbi.nlm.nih.gov/gene/10592	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002541	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	SMNDC1	http://www.ncbi.nlm.nih.gov/gene/10285	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002542	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	SOX12	http://www.ncbi.nlm.nih.gov/gene/6666	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002543	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	TUBGCP3	http://www.ncbi.nlm.nih.gov/gene/10426	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002544	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Jijoye cells	-	Host	mRNA	ZBED4	http://www.ncbi.nlm.nih.gov/gene/9889	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002545	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4-3p(ebv-mir-bart4*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0009204	Lymphoblastoid cell lines	-	Host	mRNA	CLEC7A	http://www.ncbi.nlm.nih.gov/gene/64581	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002546	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4-3p(ebv-mir-bart4*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0009204	Lymphoblastoid cell lines	-	Host	mRNA	CPSF7	http://www.ncbi.nlm.nih.gov/gene/79869	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002547	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4-3p(ebv-mir-bart4*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0009204	Lymphoblastoid cell lines	-	Host	mRNA	ELOF1	http://www.ncbi.nlm.nih.gov/gene/84337	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00002548	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4-3p(ebv-mir-bart4*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0009204	Lymphoblastoid cell lines	-	Host	mRNA	FAM126B	http://www.ncbi.nlm.nih.gov/gene/285172	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002549	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4-3p(ebv-mir-bart4*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0009204	Lymphoblastoid cell lines	-	Host	mRNA	GLO1	http://www.ncbi.nlm.nih.gov/gene/2739	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002550	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4-3p(ebv-mir-bart4*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0009204	Lymphoblastoid cell lines	-	Host	mRNA	HMGCS1	http://www.ncbi.nlm.nih.gov/gene/3157	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002551	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4-3p(ebv-mir-bart4*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0009204	Lymphoblastoid cell lines	-	Host	mRNA	IRF4	http://www.ncbi.nlm.nih.gov/gene/3662	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002552	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4-3p(ebv-mir-bart4*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0009204	Lymphoblastoid cell lines	-	Host	mRNA	NFE2L2	http://www.ncbi.nlm.nih.gov/gene/4780	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002553	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART4-3p(ebv-mir-bart4*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0009204	Lymphoblastoid cell lines	-	Host	mRNA	WDR33	http://www.ncbi.nlm.nih.gov/gene/55339	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002554	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	ABL2	http://www.ncbi.nlm.nih.gov/gene/27	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002555	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	AKT1S1	http://www.ncbi.nlm.nih.gov/gene/84335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002556	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	ARID1A	http://www.ncbi.nlm.nih.gov/gene/8289	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002557	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	BRE	http://www.ncbi.nlm.nih.gov/gene/9577	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002558	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	BRWD1	http://www.ncbi.nlm.nih.gov/gene/54014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002559	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	C17orf63	http://www.ncbi.nlm.nih.gov/gene/55731	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002560	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	C1orf144	http://www.ncbi.nlm.nih.gov/gene/26099	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002561	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	C20orf112	http://www.ncbi.nlm.nih.gov/gene/140688	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002562	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	C4orf46	http://www.ncbi.nlm.nih.gov/gene/201725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002563	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	CBARA1	http://www.ncbi.nlm.nih.gov/gene/10367	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002564	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	CCND2	http://www.ncbi.nlm.nih.gov/gene/894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002565	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	CDC2L6	http://www.ncbi.nlm.nih.gov/gene/23097 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002566	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	CFL1	http://www.ncbi.nlm.nih.gov/gene/1072	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002567	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	CLOCK	http://www.ncbi.nlm.nih.gov/gene/9575	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002568	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	CYTH2	http://www.ncbi.nlm.nih.gov/gene/9266	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002569	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	DCLRE1C	http://www.ncbi.nlm.nih.gov/gene/64421	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002570	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	DOLPP1	http://www.ncbi.nlm.nih.gov/gene/57171	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002571	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	DUSP18	http://www.ncbi.nlm.nih.gov/gene/150290	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002572	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	DYRK2	http://www.ncbi.nlm.nih.gov/gene/8445	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002573	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	FNDC3A	http://www.ncbi.nlm.nih.gov/gene/22862	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002574	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	GNAI2	http://www.ncbi.nlm.nih.gov/gene/2771	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002575	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	GTPBP10	http://www.ncbi.nlm.nih.gov/gene/85865	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002576	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	HMG20A	http://www.ncbi.nlm.nih.gov/gene/10363	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002577	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	ITPKB	http://www.ncbi.nlm.nih.gov/gene/3707	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002578	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	LZIC	http://www.ncbi.nlm.nih.gov/gene/84328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002579	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	MKNK2	http://www.ncbi.nlm.nih.gov/gene/2872	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002580	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	MPV17	http://www.ncbi.nlm.nih.gov/gene/4358	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002581	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	OTUD7B	http://www.ncbi.nlm.nih.gov/gene/56957	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002582	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	PRDM1	http://www.ncbi.nlm.nih.gov/gene/639	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002583	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	PRMT6	http://www.ncbi.nlm.nih.gov/gene/55170	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002584	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	PXT1	http://www.ncbi.nlm.nih.gov/gene/222659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002585	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	RBAK	http://www.ncbi.nlm.nih.gov/gene/389458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002586	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	RBM15B	http://www.ncbi.nlm.nih.gov/gene/29890	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002587	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	RPS6KA1	http://www.ncbi.nlm.nih.gov/gene/6195	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002588	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	SENP1	http://www.ncbi.nlm.nih.gov/gene/29843	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002589	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	SHC1	http://www.ncbi.nlm.nih.gov/gene/6464	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002590	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	SNTB1	http://www.ncbi.nlm.nih.gov/gene/6641	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002591	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	TFPI	http://www.ncbi.nlm.nih.gov/gene/7035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002592	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	TNFRSF10B	http://www.ncbi.nlm.nih.gov/gene/8795	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002593	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	TOMM20	http://www.ncbi.nlm.nih.gov/gene/100129272	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002594	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	TOMM22	http://www.ncbi.nlm.nih.gov/gene/56993	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002595	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	TRIB1	http://www.ncbi.nlm.nih.gov/gene/10221	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002596	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	TSC1	http://www.ncbi.nlm.nih.gov/gene/7248	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002597	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	UBA1	http://www.ncbi.nlm.nih.gov/gene/7317	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002598	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	WDR32	http://www.ncbi.nlm.nih.gov/gene/79269 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002599	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	WWTR1	http://www.ncbi.nlm.nih.gov/gene/25937	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002600	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	YARS	http://www.ncbi.nlm.nih.gov/gene/8565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002601	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-3p(ebv-mir-bart6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003415	BC-1	-	Host	mRNA	YIPF6	http://www.ncbi.nlm.nih.gov/gene/286451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002602	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(BART-6-5P)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	-	-	Host	Protein	DICER1	http://www.ncbi.nlm.nih.gov/gene/23405	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets (Table 1).Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV- and EBV-encoded miRNAs.
VHID00002603	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	AAGAB	http://www.ncbi.nlm.nih.gov/gene/79719	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002604	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ACOX3	http://www.ncbi.nlm.nih.gov/gene/8310	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002605	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ANKRD46	http://www.ncbi.nlm.nih.gov/gene/157567	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002606	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ANXA7	http://www.ncbi.nlm.nih.gov/gene/310	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002607	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	APLP2	http://www.ncbi.nlm.nih.gov/gene/334	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002608	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ARL2	http://www.ncbi.nlm.nih.gov/gene/402	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002609	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ARL5B	http://www.ncbi.nlm.nih.gov/gene/221079	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002610	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ARPP19	http://www.ncbi.nlm.nih.gov/gene/646227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002611	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ATXN3	http://www.ncbi.nlm.nih.gov/gene/4287	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002612	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	AVL9	http://www.ncbi.nlm.nih.gov/gene/23080	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002613	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	BBX	http://www.ncbi.nlm.nih.gov/gene/56987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002614	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	BNIP3L	http://www.ncbi.nlm.nih.gov/gene/665	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002615	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	BRPF3	http://www.ncbi.nlm.nih.gov/gene/27154	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002616	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	BTG3	http://www.ncbi.nlm.nih.gov/gene/10950	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002617	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	C15orf23	http://www.ncbi.nlm.nih.gov/gene/90417	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002618	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	C18orf54	http://www.ncbi.nlm.nih.gov/gene/162681	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002619	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	C19orf12	http://www.ncbi.nlm.nih.gov/gene/83636	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002620	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	C1orf107	http://www.ncbi.nlm.nih.gov/gene/27042	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002621	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	C6orf120	http://www.ncbi.nlm.nih.gov/gene/387263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002622	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	C7orf43	http://www.ncbi.nlm.nih.gov/gene/55262	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002623	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	CALM2	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002624	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	CALU	http://www.ncbi.nlm.nih.gov/gene/813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002625	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	CAMSAP1L1	http://www.ncbi.nlm.nih.gov/gene/23271	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002626	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	CBFB	http://www.ncbi.nlm.nih.gov/gene/865	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002627	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	CCDC47	http://www.ncbi.nlm.nih.gov/gene/57003	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002628	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	CCNG1	http://www.ncbi.nlm.nih.gov/gene/900	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002629	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	CCNJ	http://www.ncbi.nlm.nih.gov/gene/54619	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002630	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002631	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	CDC2L5	http://www.ncbi.nlm.nih.gov/gene/8621 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002632	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	CDV3	http://www.ncbi.nlm.nih.gov/gene/55573	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002633	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	CLTC	http://www.ncbi.nlm.nih.gov/gene/1213	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002634	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	CPEB2	http://www.ncbi.nlm.nih.gov/gene/132864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002635	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	CTDSPL2	http://www.ncbi.nlm.nih.gov/gene/51496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002636	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	DCK	http://www.ncbi.nlm.nih.gov/gene/1633	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002637	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	DCTN4	http://www.ncbi.nlm.nih.gov/gene/51164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002638	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	DIDO1	http://www.ncbi.nlm.nih.gov/gene/11083	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002639	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	DNAJB9	http://www.ncbi.nlm.nih.gov/gene/4189	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002640	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	DOT1L	http://www.ncbi.nlm.nih.gov/gene/84444	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002641	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	EEA1	http://www.ncbi.nlm.nih.gov/gene/8411	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002642	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	EIF1AD	http://www.ncbi.nlm.nih.gov/gene/84285	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002643	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	EIF4B	http://www.ncbi.nlm.nih.gov/gene/1975	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002644	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ELK4	http://www.ncbi.nlm.nih.gov/gene/2005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002645	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	EMP3	http://www.ncbi.nlm.nih.gov/gene/2014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002646	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ERLIN1	http://www.ncbi.nlm.nih.gov/gene/10613	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002647	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	FAM108C1	http://www.ncbi.nlm.nih.gov/gene/58489	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002648	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	FAM134A	http://www.ncbi.nlm.nih.gov/gene/79137	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002649	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	FAM174A	http://www.ncbi.nlm.nih.gov/gene/345757	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002650	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	FAM36A	http://www.ncbi.nlm.nih.gov/gene/116228	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002651	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	FAM46C	http://www.ncbi.nlm.nih.gov/gene/54855	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002652	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	FAM98B	http://www.ncbi.nlm.nih.gov/gene/283742	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002653	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	FASTKD2	http://www.ncbi.nlm.nih.gov/gene/22868	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002654	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	FBXO3	http://www.ncbi.nlm.nih.gov/gene/26273	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002655	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	FBXO45	http://www.ncbi.nlm.nih.gov/gene/200933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002656	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	FUSIP1	http://www.ncbi.nlm.nih.gov/gene/10772 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002657	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	FZD3	http://www.ncbi.nlm.nih.gov/gene/7976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002658	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	G3BP2	http://www.ncbi.nlm.nih.gov/gene/9908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002659	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	GABPB1	http://www.ncbi.nlm.nih.gov/gene/2553	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002660	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	GBP3	http://www.ncbi.nlm.nih.gov/gene/2635	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002661	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	GNAQ	http://www.ncbi.nlm.nih.gov/gene/2776	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002662	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	GPATCH8	http://www.ncbi.nlm.nih.gov/gene/23131	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002663	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	GPRIN3	http://www.ncbi.nlm.nih.gov/gene/285513	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002664	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	HAT1	http://www.ncbi.nlm.nih.gov/gene/8520	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002665	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	HCFC2	http://www.ncbi.nlm.nih.gov/gene/29915	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002666	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	HDHD3	http://www.ncbi.nlm.nih.gov/gene/81932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002667	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	HMGXB4	http://www.ncbi.nlm.nih.gov/gene/10042	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002668	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	HN1	http://www.ncbi.nlm.nih.gov/gene/51155	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002669	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	HSPH1	http://www.ncbi.nlm.nih.gov/gene/10808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002670	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ICK	http://www.ncbi.nlm.nih.gov/gene/22858	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002671	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ICMT	http://www.ncbi.nlm.nih.gov/gene/23463	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002672	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ICT1	http://www.ncbi.nlm.nih.gov/gene/3396	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002673	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	IDE	http://www.ncbi.nlm.nih.gov/gene/3416	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002674	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	IFIH1	http://www.ncbi.nlm.nih.gov/gene/64135	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002675	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	IRS1	http://www.ncbi.nlm.nih.gov/gene/3667	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002676	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ITGAV	http://www.ncbi.nlm.nih.gov/gene/3685	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002677	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	KBTBD6	http://www.ncbi.nlm.nih.gov/gene/89890	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002678	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	KDM2A	http://www.ncbi.nlm.nih.gov/gene/22992	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002679	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	KIAA0776	http://www.ncbi.nlm.nih.gov/gene/23376	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002680	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	KIAA1432	http://www.ncbi.nlm.nih.gov/gene/57589	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002681	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	KLF12	http://www.ncbi.nlm.nih.gov/gene/11278	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002682	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	KLHL9	http://www.ncbi.nlm.nih.gov/gene/55958	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002683	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	LARP4B	http://www.ncbi.nlm.nih.gov/gene/23185	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002684	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	LCOR	http://www.ncbi.nlm.nih.gov/gene/84458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002685	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	LEPROTL1	http://www.ncbi.nlm.nih.gov/gene/23484	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002686	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	MANEA	http://www.ncbi.nlm.nih.gov/gene/79694	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002687	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	MFAP3	http://www.ncbi.nlm.nih.gov/gene/4238	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002688	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	MIER3	http://www.ncbi.nlm.nih.gov/gene/166968	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002689	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	MLL	http://www.ncbi.nlm.nih.gov/gene/4297	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002690	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	MLLT10	http://www.ncbi.nlm.nih.gov/gene/8028	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002691	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	MLLT3	http://www.ncbi.nlm.nih.gov/gene/4300	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002692	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	MPP6	http://www.ncbi.nlm.nih.gov/gene/51678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002693	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	MTHFD2L	http://www.ncbi.nlm.nih.gov/gene/441024	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002694	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	MTRR	http://www.ncbi.nlm.nih.gov/gene/4552	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002695	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	MYC	http://www.ncbi.nlm.nih.gov/gene/4609	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002696	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	NAPEPLD	http://www.ncbi.nlm.nih.gov/gene/222236	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002697	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	NEK7	http://www.ncbi.nlm.nih.gov/gene/140609	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002698	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	NHLRC2	http://www.ncbi.nlm.nih.gov/gene/374354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002699	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	NIPSNAP3A	http://www.ncbi.nlm.nih.gov/gene/25934	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002700	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	NPTN	http://www.ncbi.nlm.nih.gov/gene/27020	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002701	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	NT5DC3	http://www.ncbi.nlm.nih.gov/gene/51559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002702	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	NUCKS1	http://www.ncbi.nlm.nih.gov/gene/64710	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002703	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	NUPL1	http://www.ncbi.nlm.nih.gov/gene/9818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002704	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	OTUD1	http://www.ncbi.nlm.nih.gov/gene/220213	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002705	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	PA2G4	http://www.ncbi.nlm.nih.gov/gene/5036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002706	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	PCGF3	http://www.ncbi.nlm.nih.gov/gene/10336	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002707	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	PDPR	http://www.ncbi.nlm.nih.gov/gene/55066	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002708	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	PHF14	http://www.ncbi.nlm.nih.gov/gene/9678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002709	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	PIM2	http://www.ncbi.nlm.nih.gov/gene/11040	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002710	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	PK4P	#	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002711	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	PLEKHB2	http://www.ncbi.nlm.nih.gov/gene/55041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002712	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	PLEKHF2	http://www.ncbi.nlm.nih.gov/gene/79666	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002713	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002714	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	PRDM2	http://www.ncbi.nlm.nih.gov/gene/7799	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002715	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	PRKACB	http://www.ncbi.nlm.nih.gov/gene/5567	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002716	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	PSMC2	http://www.ncbi.nlm.nih.gov/gene/5701	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002717	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	PTP4A1	http://www.ncbi.nlm.nih.gov/gene/7803	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002718	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	PXMP3	http://www.ncbi.nlm.nih.gov/gene/5828 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002719	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	RAD51	http://www.ncbi.nlm.nih.gov/gene/5888	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002720	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	RAG1	http://www.ncbi.nlm.nih.gov/gene/5896	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002721	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	REST	http://www.ncbi.nlm.nih.gov/gene/5978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002722	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	RHOBTB3	http://www.ncbi.nlm.nih.gov/gene/22836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002723	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ROCK2	http://www.ncbi.nlm.nih.gov/gene/9475	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002724	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	RPL30	http://www.ncbi.nlm.nih.gov/gene/6156	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002725	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	RPRD1B	http://www.ncbi.nlm.nih.gov/gene/58490	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002726	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SACS	http://www.ncbi.nlm.nih.gov/gene/26278	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002727	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SC4MOL	http://www.ncbi.nlm.nih.gov/gene/6307	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002728	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SCFD1	http://www.ncbi.nlm.nih.gov/gene/23256	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002729	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SEMA3D	http://www.ncbi.nlm.nih.gov/gene/223117	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002730	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SENP2	http://www.ncbi.nlm.nih.gov/gene/59343	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002731	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SERP1	http://www.ncbi.nlm.nih.gov/gene/27230	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002732	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SET	http://www.ncbi.nlm.nih.gov/gene/646817	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002733	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SFRS7	http://www.ncbi.nlm.nih.gov/gene/6432	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002734	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SKI	http://www.ncbi.nlm.nih.gov/gene/6497	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002735	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SKP1	http://www.ncbi.nlm.nih.gov/gene/6500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002736	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SLC19A2	http://www.ncbi.nlm.nih.gov/gene/10560	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002737	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SLC35B4	http://www.ncbi.nlm.nih.gov/gene/84912	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002738	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SLC41A1	http://www.ncbi.nlm.nih.gov/gene/254428	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002739	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SMC5	http://www.ncbi.nlm.nih.gov/gene/23137	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002740	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SMG1	http://www.ncbi.nlm.nih.gov/gene/23049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002741	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SNX10	http://www.ncbi.nlm.nih.gov/gene/29887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002742	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SNX13	http://www.ncbi.nlm.nih.gov/gene/23161	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002743	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SNX18	http://www.ncbi.nlm.nih.gov/gene/112574	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002744	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SOCS5	http://www.ncbi.nlm.nih.gov/gene/9655	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002745	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	STAT3	http://www.ncbi.nlm.nih.gov/gene/6774	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002746	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	SYNCRIP	http://www.ncbi.nlm.nih.gov/gene/10492	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002747	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	TET2	http://www.ncbi.nlm.nih.gov/gene/54790	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002748	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	TFDP1	http://www.ncbi.nlm.nih.gov/gene/7027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002749	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	THUMPD2	http://www.ncbi.nlm.nih.gov/gene/80745	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002750	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	TMEM127	http://www.ncbi.nlm.nih.gov/gene/55654	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002751	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	TMEM170A	http://www.ncbi.nlm.nih.gov/gene/124491	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002752	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	TMEM20	http://www.ncbi.nlm.nih.gov/gene/159371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002753	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	TMEM50A	http://www.ncbi.nlm.nih.gov/gene/23585	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002754	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	TMEM97	http://www.ncbi.nlm.nih.gov/gene/27346	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002755	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	TNPO2	http://www.ncbi.nlm.nih.gov/gene/30000	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002756	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	TOR1AIP2	http://www.ncbi.nlm.nih.gov/gene/163590	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002757	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	TRIM13	http://www.ncbi.nlm.nih.gov/gene/10206	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002758	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	TRIM8	http://www.ncbi.nlm.nih.gov/gene/81603	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002759	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	TXN2	http://www.ncbi.nlm.nih.gov/gene/25828	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002760	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	UBE2V2	http://www.ncbi.nlm.nih.gov/gene/7336	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002761	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	UBQLN2	http://www.ncbi.nlm.nih.gov/gene/29978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002762	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	UQCRB	http://www.ncbi.nlm.nih.gov/gene/442454	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002763	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	VGLL4	http://www.ncbi.nlm.nih.gov/gene/9686	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002764	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	WASL	http://www.ncbi.nlm.nih.gov/gene/8976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002765	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	WDR20	http://www.ncbi.nlm.nih.gov/gene/91833	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002766	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	WNK1	http://www.ncbi.nlm.nih.gov/gene/65125	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002767	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	XPR1	http://www.ncbi.nlm.nih.gov/gene/9213	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002768	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	YIPF5	http://www.ncbi.nlm.nih.gov/gene/81555	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002769	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZBTB11	http://www.ncbi.nlm.nih.gov/gene/27107	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002770	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZDHHC20	http://www.ncbi.nlm.nih.gov/gene/253832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002771	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZMYM4	http://www.ncbi.nlm.nih.gov/gene/9202	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002772	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF100	http://www.ncbi.nlm.nih.gov/gene/163227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002773	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF12	http://www.ncbi.nlm.nih.gov/gene/7559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002774	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF124	http://www.ncbi.nlm.nih.gov/gene/7678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002775	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF138	http://www.ncbi.nlm.nih.gov/gene/7697	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002776	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF200	http://www.ncbi.nlm.nih.gov/gene/7752	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002777	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF264	http://www.ncbi.nlm.nih.gov/gene/9422	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002778	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF460	http://www.ncbi.nlm.nih.gov/gene/10794	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002779	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF462	http://www.ncbi.nlm.nih.gov/gene/58499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002780	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF468	http://www.ncbi.nlm.nih.gov/gene/90333	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002781	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF479	http://www.ncbi.nlm.nih.gov/gene/100170646	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002782	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF562	http://www.ncbi.nlm.nih.gov/gene/54811	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002783	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF588	http://www.ncbi.nlm.nih.gov/gene/51427	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002784	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF594	http://www.ncbi.nlm.nih.gov/gene/84622	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002785	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF605	http://www.ncbi.nlm.nih.gov/gene/100289635	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002786	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF615	http://www.ncbi.nlm.nih.gov/gene/284370	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002787	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF621	http://www.ncbi.nlm.nih.gov/gene/285268	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002788	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF626	http://www.ncbi.nlm.nih.gov/gene/199777	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002789	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF716	http://www.ncbi.nlm.nih.gov/gene/441234	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002790	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF805	http://www.ncbi.nlm.nih.gov/gene/390980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002791	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(ebv-mir-bart6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	BC-1	-	Host	mRNA	ZNF91	http://www.ncbi.nlm.nih.gov/gene/7644	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002792	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART6-5p(miR-BART6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	C666-1 cell	-	Host	mRNA	DICER1(DICER)	http://www.ncbi.nlm.nih.gov/gene/23405	Downregulation	Transfections of the miR-BART6-5p Antagomir, Northern Blotting, miRISC Loading Assay.	20716523	Editing of a mutation-containing pri-miR-BART6 found in Daudi Burkitt lymphoma and nasopharyngeal carcinoma C666-1 cell lines suppressed processing of miR-BART6 RNAs.miR-BART6-5p RNAs silence Dicer through multiple target sites located in the 3'-UTR of Dicer mRNA.
VHID00002793	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	ADIPOR1	http://www.ncbi.nlm.nih.gov/gene/51094	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002794	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	ADSS	http://www.ncbi.nlm.nih.gov/gene/159	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002795	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	AFF4	http://www.ncbi.nlm.nih.gov/gene/27125	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002796	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	ARHGAP11A	http://www.ncbi.nlm.nih.gov/gene/89839	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002797	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	B4GALT1	http://www.ncbi.nlm.nih.gov/gene/2683	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002798	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	BAZ1B	http://www.ncbi.nlm.nih.gov/gene/9031	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002799	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	C6orf115	http://www.ncbi.nlm.nih.gov/gene/58527	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002800	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	CCDC44	http://www.ncbi.nlm.nih.gov/gene/51204 	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002801	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	CENPQ	http://www.ncbi.nlm.nih.gov/gene/55166	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002802	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	CLCN3	http://www.ncbi.nlm.nih.gov/gene/1182	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002803	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	CSDE1	http://www.ncbi.nlm.nih.gov/gene/7812	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002804	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	DCTN4	http://www.ncbi.nlm.nih.gov/gene/51164	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002805	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	DHX33	http://www.ncbi.nlm.nih.gov/gene/56919	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002806	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	DKFZp586K0821	#	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002807	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	DYRK2	http://www.ncbi.nlm.nih.gov/gene/8445	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002808	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	EIF4G2	http://www.ncbi.nlm.nih.gov/gene/1982	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002809	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	ELP4	http://www.ncbi.nlm.nih.gov/gene/26610	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002810	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	GCET2	http://www.ncbi.nlm.nih.gov/gene/257144	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002811	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	GCLC	http://www.ncbi.nlm.nih.gov/gene/2729	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002812	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	GNPTAB	http://www.ncbi.nlm.nih.gov/gene/79158	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002813	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	HNRNPF	http://www.ncbi.nlm.nih.gov/gene/3185	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002814	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	HNRNPR	http://www.ncbi.nlm.nih.gov/gene/10236	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002815	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	ING3	http://www.ncbi.nlm.nih.gov/gene/54556	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002816	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	KIAA0947	http://www.ncbi.nlm.nih.gov/gene/23379	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002817	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	KIAA2026	http://www.ncbi.nlm.nih.gov/gene/158358	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002818	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	KLHL36	http://www.ncbi.nlm.nih.gov/gene/79786	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002819	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	LARP1	http://www.ncbi.nlm.nih.gov/gene/23367	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002820	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	MAP4K5	http://www.ncbi.nlm.nih.gov/gene/11183	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002821	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	MED13	http://www.ncbi.nlm.nih.gov/gene/9969	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002822	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	MIER3	http://www.ncbi.nlm.nih.gov/gene/166968	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002823	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	MOBKL1A	http://www.ncbi.nlm.nih.gov/gene/92597	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002824	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	MRPL22	http://www.ncbi.nlm.nih.gov/gene/29093	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002825	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	MYPOP	http://www.ncbi.nlm.nih.gov/gene/339344	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002826	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	NFKBIA	http://www.ncbi.nlm.nih.gov/gene/4792	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002827	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	PAK2	http://www.ncbi.nlm.nih.gov/gene/5062	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002828	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	PATZ1	http://www.ncbi.nlm.nih.gov/gene/23598	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002829	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	PBXIP1	http://www.ncbi.nlm.nih.gov/gene/57326	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002830	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	PCMTD2	http://www.ncbi.nlm.nih.gov/gene/55251	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002831	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	PGK1	http://www.ncbi.nlm.nih.gov/gene/5230	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002832	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	PICALM	http://www.ncbi.nlm.nih.gov/gene/8301	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002833	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	PNPO	http://www.ncbi.nlm.nih.gov/gene/55163	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002834	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	POLD3	http://www.ncbi.nlm.nih.gov/gene/10714	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002835	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	POLR2K	http://www.ncbi.nlm.nih.gov/gene/5440	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002836	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	PPP2R5A	http://www.ncbi.nlm.nih.gov/gene/5525	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002837	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	PRR3	http://www.ncbi.nlm.nih.gov/gene/80742	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002838	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	RAB27A	http://www.ncbi.nlm.nih.gov/gene/5873	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002839	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	RASGRP3	http://www.ncbi.nlm.nih.gov/gene/25780	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002840	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	RCSD1	http://www.ncbi.nlm.nih.gov/gene/92241	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002841	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	RHOA	http://www.ncbi.nlm.nih.gov/gene/387	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002842	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	RPL5	http://www.ncbi.nlm.nih.gov/gene/647436	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002843	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	SCFD1	http://www.ncbi.nlm.nih.gov/gene/23256	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002844	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	SEC23A	http://www.ncbi.nlm.nih.gov/gene/10484	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002845	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	TFEC	http://www.ncbi.nlm.nih.gov/gene/22797	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002846	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	TMEM19	http://www.ncbi.nlm.nih.gov/gene/55266	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002847	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	TMF1	http://www.ncbi.nlm.nih.gov/gene/7110	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002848	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	TNFRSF1B	http://www.ncbi.nlm.nih.gov/gene/7133	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002849	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	TNKS2	http://www.ncbi.nlm.nih.gov/gene/80351	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002850	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	TXNDC5	http://www.ncbi.nlm.nih.gov/gene/81567	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002851	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	WDR4	http://www.ncbi.nlm.nih.gov/gene/10785	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002852	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	YEATS4	http://www.ncbi.nlm.nih.gov/gene/8089	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002853	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	YWHAG	http://www.ncbi.nlm.nih.gov/gene/7532	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002854	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	ZCCHC7	http://www.ncbi.nlm.nih.gov/gene/84186	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002855	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	ZMYND11	http://www.ncbi.nlm.nih.gov/gene/10771	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002856	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	ZNF180	http://www.ncbi.nlm.nih.gov/gene/7733	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002857	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	ZNF217	http://www.ncbi.nlm.nih.gov/gene/7764	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002858	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	Jijoye cells	-	Host	mRNA	ZNF260	http://www.ncbi.nlm.nih.gov/gene/339324	-	HITS-CLIP.	22473208	Supplemental Table 8: HITS-CLIP 3'-UTR clusters with seed matches (minimum nt 2-8) to the 20 most abundant miRNAs in Jijoye cells.
VHID00002859	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART7-5p(ebv-mir-bart7*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004815	BC-1	-	Host	mRNA	EIF2C2	http://www.ncbi.nlm.nih.gov/gene/27161	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002860	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	ACVR2A	http://www.ncbi.nlm.nih.gov/gene/92	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002861	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	AK3	http://www.ncbi.nlm.nih.gov/gene/50808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002862	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	API5L1	http://www.ncbi.nlm.nih.gov/gene/8539	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002863	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	ARHGAP5	http://www.ncbi.nlm.nih.gov/gene/394	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002864	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	ATP2A2	http://www.ncbi.nlm.nih.gov/gene/488	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002865	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	ATXN7L3	http://www.ncbi.nlm.nih.gov/gene/56970	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002866	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	B4GALT5	http://www.ncbi.nlm.nih.gov/gene/9334	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002867	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	BBX	http://www.ncbi.nlm.nih.gov/gene/56987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002868	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	BLOC1S2	http://www.ncbi.nlm.nih.gov/gene/282991	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002869	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	BSN	http://www.ncbi.nlm.nih.gov/gene/8927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002870	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	BTBD3	http://www.ncbi.nlm.nih.gov/gene/22903	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002871	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	BTN2A1	http://www.ncbi.nlm.nih.gov/gene/11120	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002872	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	BTN2A2	http://www.ncbi.nlm.nih.gov/gene/10385	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002873	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	C12orf4	http://www.ncbi.nlm.nih.gov/gene/283461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002874	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	C4orf32	http://www.ncbi.nlm.nih.gov/gene/132720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002875	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	CAPRIN2	http://www.ncbi.nlm.nih.gov/gene/65981	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002876	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	CCDC91	http://www.ncbi.nlm.nih.gov/gene/55297	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002877	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	CD48	http://www.ncbi.nlm.nih.gov/gene/962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002878	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	CDKN1A	http://www.ncbi.nlm.nih.gov/gene/1026	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002879	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	CMTM6	http://www.ncbi.nlm.nih.gov/gene/54918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002880	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	DENND1B	http://www.ncbi.nlm.nih.gov/gene/163486	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002881	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	DNAJC16	http://www.ncbi.nlm.nih.gov/gene/23341	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002882	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	DNAL1	http://www.ncbi.nlm.nih.gov/gene/83544	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002883	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	EHF	http://www.ncbi.nlm.nih.gov/gene/26298	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002884	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	ELK4	http://www.ncbi.nlm.nih.gov/gene/2005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002885	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	EXPH5	http://www.ncbi.nlm.nih.gov/gene/23086	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002886	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	FAM126B	http://www.ncbi.nlm.nih.gov/gene/285172	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002887	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	FAM177A1	http://www.ncbi.nlm.nih.gov/gene/283635	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002888	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	GARS	http://www.ncbi.nlm.nih.gov/gene/2617	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002889	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	GATAD2B	http://www.ncbi.nlm.nih.gov/gene/57459	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002890	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	GLT8D3	http://www.ncbi.nlm.nih.gov/gene/283464 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002891	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	IRF2	http://www.ncbi.nlm.nih.gov/gene/3660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002892	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	IVD	http://www.ncbi.nlm.nih.gov/gene/3712	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002893	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	KLF10	http://www.ncbi.nlm.nih.gov/gene/7071	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002894	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	KLHL18	http://www.ncbi.nlm.nih.gov/gene/23276	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002895	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	KPNA3	http://www.ncbi.nlm.nih.gov/gene/3839	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002896	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	LAMC1	http://www.ncbi.nlm.nih.gov/gene/3915	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002897	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	LARP4B	http://www.ncbi.nlm.nih.gov/gene/23185	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002898	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	MAK16	http://www.ncbi.nlm.nih.gov/gene/84549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002899	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	MAPKSP1	http://www.ncbi.nlm.nih.gov/gene/8649	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002900	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	MAT2B	http://www.ncbi.nlm.nih.gov/gene/27430	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002901	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	MIER3	http://www.ncbi.nlm.nih.gov/gene/166968	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002902	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	NHLRC2	http://www.ncbi.nlm.nih.gov/gene/374354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002903	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	NUDT5	http://www.ncbi.nlm.nih.gov/gene/11164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002904	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	ORC5L	http://www.ncbi.nlm.nih.gov/gene/5001	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002905	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	PPAT	http://www.ncbi.nlm.nih.gov/gene/5471	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002906	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	PPM1F	http://www.ncbi.nlm.nih.gov/gene/9647	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002907	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	PRDM1	http://www.ncbi.nlm.nih.gov/gene/639	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002908	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	PREB	http://www.ncbi.nlm.nih.gov/gene/10113	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002909	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	PRMT2	http://www.ncbi.nlm.nih.gov/gene/3275	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002910	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	QSER1	http://www.ncbi.nlm.nih.gov/gene/79832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002911	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	RAB11FIP2	http://www.ncbi.nlm.nih.gov/gene/22841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002912	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	RALGPS2	http://www.ncbi.nlm.nih.gov/gene/55103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002913	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	RAVER2	http://www.ncbi.nlm.nih.gov/gene/55225	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002914	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	REV3L	http://www.ncbi.nlm.nih.gov/gene/5980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002915	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	RFX7	http://www.ncbi.nlm.nih.gov/gene/64864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002916	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	RIF1	http://www.ncbi.nlm.nih.gov/gene/55183	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002917	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	RNF168	http://www.ncbi.nlm.nih.gov/gene/165918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002918	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002919	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	RYBP	http://www.ncbi.nlm.nih.gov/gene/23429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002920	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	SASS6	http://www.ncbi.nlm.nih.gov/gene/163786	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002921	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	SDHAF1	http://www.ncbi.nlm.nih.gov/gene/644096	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002922	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	SLC19A2	http://www.ncbi.nlm.nih.gov/gene/10560	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002923	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	SLC26A11	http://www.ncbi.nlm.nih.gov/gene/284129	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002924	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	SLC35D1	http://www.ncbi.nlm.nih.gov/gene/23169	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002925	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	SPRYD4	http://www.ncbi.nlm.nih.gov/gene/283377	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002926	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	SSR3	http://www.ncbi.nlm.nih.gov/gene/6747	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002927	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	TAOK3	http://www.ncbi.nlm.nih.gov/gene/51347	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002928	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	TCEB3	http://www.ncbi.nlm.nih.gov/gene/6924	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002929	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	TGS1	http://www.ncbi.nlm.nih.gov/gene/96764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002930	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	THUMPD1	http://www.ncbi.nlm.nih.gov/gene/55623	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002931	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	TIMM9	http://www.ncbi.nlm.nih.gov/gene/26520	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002932	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	TM9SF3	http://www.ncbi.nlm.nih.gov/gene/56889	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002933	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	TMEM64	http://www.ncbi.nlm.nih.gov/gene/169200	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002934	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	TMF1	http://www.ncbi.nlm.nih.gov/gene/7110	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002935	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	TPD52	http://www.ncbi.nlm.nih.gov/gene/7163	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002936	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	TRIB1	http://www.ncbi.nlm.nih.gov/gene/10221	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002937	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	TSPYL1	http://www.ncbi.nlm.nih.gov/gene/7259	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002938	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	UBN2	http://www.ncbi.nlm.nih.gov/gene/254048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002939	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	VTI1B	http://www.ncbi.nlm.nih.gov/gene/10490	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002940	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	WDR1	http://www.ncbi.nlm.nih.gov/gene/9948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002941	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	XPO6	http://www.ncbi.nlm.nih.gov/gene/23214	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002942	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	ZFAND3	http://www.ncbi.nlm.nih.gov/gene/60685	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002943	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	ZFP36L2	http://www.ncbi.nlm.nih.gov/gene/678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002944	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	ZNF419	http://www.ncbi.nlm.nih.gov/gene/79744	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002945	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART8-3p(ebv-mir-bart8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003418	BC-1	-	Host	mRNA	ZNF493	http://www.ncbi.nlm.nih.gov/gene/284443	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002946	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	ADAR	http://www.ncbi.nlm.nih.gov/gene/103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002947	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	ANKHD1	http://www.ncbi.nlm.nih.gov/gene/8637	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002948	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	ATXN1	http://www.ncbi.nlm.nih.gov/gene/6310	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002949	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	BMI1	http://www.ncbi.nlm.nih.gov/gene/648	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002950	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	C11orf30	http://www.ncbi.nlm.nih.gov/gene/56946	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002951	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	C15orf17	http://www.ncbi.nlm.nih.gov/gene/57184	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002952	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	C5orf28	http://www.ncbi.nlm.nih.gov/gene/64417	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002953	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	CAPRIN1	http://www.ncbi.nlm.nih.gov/gene/4076	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002954	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	CAPZA2	http://www.ncbi.nlm.nih.gov/gene/830	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002955	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	CASP7	http://www.ncbi.nlm.nih.gov/gene/840	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002956	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	CDK8	http://www.ncbi.nlm.nih.gov/gene/1024	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002957	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	CLASP1	http://www.ncbi.nlm.nih.gov/gene/23332	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002958	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	DDX6	http://www.ncbi.nlm.nih.gov/gene/1656	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002959	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	EIF3L	http://www.ncbi.nlm.nih.gov/gene/51386	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002960	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	ELAC1	http://www.ncbi.nlm.nih.gov/gene/55520	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002961	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	FNBP4	http://www.ncbi.nlm.nih.gov/gene/23360	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002962	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	FRS2	http://www.ncbi.nlm.nih.gov/gene/10818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002963	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	GLS	http://www.ncbi.nlm.nih.gov/gene/2744	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002964	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	HSDL1	http://www.ncbi.nlm.nih.gov/gene/83693	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002965	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	JAG1	http://www.ncbi.nlm.nih.gov/gene/182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002966	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	KIAA1712	http://www.ncbi.nlm.nih.gov/gene/80817	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002967	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	LCOR	http://www.ncbi.nlm.nih.gov/gene/84458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002968	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	MAP3K5	http://www.ncbi.nlm.nih.gov/gene/4217	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002969	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	MBIP	http://www.ncbi.nlm.nih.gov/gene/51562	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002970	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	NDRG3	http://www.ncbi.nlm.nih.gov/gene/57446	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002971	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	NR3C1	http://www.ncbi.nlm.nih.gov/gene/2908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002972	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	NUCKS1	http://www.ncbi.nlm.nih.gov/gene/64710	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002973	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	PARP6	http://www.ncbi.nlm.nih.gov/gene/56965	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002974	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	PIM2	http://www.ncbi.nlm.nih.gov/gene/11040	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002975	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002976	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	PRKAR1A	http://www.ncbi.nlm.nih.gov/gene/5573	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002977	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	PSMD13	http://www.ncbi.nlm.nih.gov/gene/5719	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002978	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	RABL5	http://www.ncbi.nlm.nih.gov/gene/64792	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002979	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	RAD21	http://www.ncbi.nlm.nih.gov/gene/5885	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002980	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	RNF169	http://www.ncbi.nlm.nih.gov/gene/254225	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002981	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	RNF38	http://www.ncbi.nlm.nih.gov/gene/152006	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002982	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	SNX10	http://www.ncbi.nlm.nih.gov/gene/29887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002983	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	SP3	http://www.ncbi.nlm.nih.gov/gene/6670	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002984	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	SS18	http://www.ncbi.nlm.nih.gov/gene/6760	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002985	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	STYX	http://www.ncbi.nlm.nih.gov/gene/6815	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002986	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	TCF3	http://www.ncbi.nlm.nih.gov/gene/6929	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002987	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	TRIM4	http://www.ncbi.nlm.nih.gov/gene/89122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002988	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	ZBTB10	http://www.ncbi.nlm.nih.gov/gene/65986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002989	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	ZMAT3	http://www.ncbi.nlm.nih.gov/gene/64393	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002990	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	ZMYND8	http://www.ncbi.nlm.nih.gov/gene/23613	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002991	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	ZNF317	http://www.ncbi.nlm.nih.gov/gene/57693	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002992	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	ZNF673	http://www.ncbi.nlm.nih.gov/gene/55634	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002993	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	ZNF740	http://www.ncbi.nlm.nih.gov/gene/283337	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002994	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART9-5p(ebv-mir-bart9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004816	BC-1	-	Host	mRNA	ZSCAN29	http://www.ncbi.nlm.nih.gov/gene/146050	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00002995	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	AKAP11	http://www.ncbi.nlm.nih.gov/gene/11215	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002996	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	ARFGEF1	http://www.ncbi.nlm.nih.gov/gene/10565	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002997	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	BBS2	http://www.ncbi.nlm.nih.gov/gene/583	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00002998	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	BIRC3	http://www.ncbi.nlm.nih.gov/gene/330	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00002999	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	CEP57	http://www.ncbi.nlm.nih.gov/gene/9702	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003000	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	FBXO33	http://www.ncbi.nlm.nih.gov/gene/254170	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003001	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	FZD3	http://www.ncbi.nlm.nih.gov/gene/7976	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003002	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	GAS7	http://www.ncbi.nlm.nih.gov/gene/8522	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003003	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	GDI2	http://www.ncbi.nlm.nih.gov/gene/2665	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003004	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	GNAS	http://www.ncbi.nlm.nih.gov/gene/2778	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003005	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	GTF3C3	http://www.ncbi.nlm.nih.gov/gene/9330	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003006	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	GTPBP4	http://www.ncbi.nlm.nih.gov/gene/23560	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003007	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	HIPK3	http://www.ncbi.nlm.nih.gov/gene/10114	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003008	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	INPP5D	http://www.ncbi.nlm.nih.gov/gene/3635	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003009	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	IPO11	http://www.ncbi.nlm.nih.gov/gene/51194	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003010	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	ITGAV	http://www.ncbi.nlm.nih.gov/gene/3685	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003011	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	KDM4B	http://www.ncbi.nlm.nih.gov/gene/23030	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003012	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	KPNB1	http://www.ncbi.nlm.nih.gov/gene/3837	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003013	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	MALT1	http://www.ncbi.nlm.nih.gov/gene/10892	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003014	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	MEX3C	http://www.ncbi.nlm.nih.gov/gene/51320	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003015	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	MYC	http://www.ncbi.nlm.nih.gov/gene/4609	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003016	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	MYO5A	http://www.ncbi.nlm.nih.gov/gene/4644	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003017	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	PANK3	http://www.ncbi.nlm.nih.gov/gene/79646	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003018	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	PARP9	http://www.ncbi.nlm.nih.gov/gene/83666	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003019	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	PCNXL3	http://www.ncbi.nlm.nih.gov/gene/399909	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003020	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	PDCD1LG2	http://www.ncbi.nlm.nih.gov/gene/80380	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003021	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	PHC3	http://www.ncbi.nlm.nih.gov/gene/80012	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003022	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	PPP2R2A	http://www.ncbi.nlm.nih.gov/gene/5520	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003023	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	RAB3GAP2	http://www.ncbi.nlm.nih.gov/gene/25782	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003024	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	RCN2	http://www.ncbi.nlm.nih.gov/gene/5955	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003025	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	RIF1	http://www.ncbi.nlm.nih.gov/gene/55183	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003026	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	SCP2	http://www.ncbi.nlm.nih.gov/gene/6342	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003027	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	SERP1	http://www.ncbi.nlm.nih.gov/gene/27230	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003028	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	SNX27	http://www.ncbi.nlm.nih.gov/gene/81609	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003029	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	SON	http://www.ncbi.nlm.nih.gov/gene/6651	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003030	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	SOS1	http://www.ncbi.nlm.nih.gov/gene/6654	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003031	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	SSR3	http://www.ncbi.nlm.nih.gov/gene/6747	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003032	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	UBE2E2	http://www.ncbi.nlm.nih.gov/gene/7325	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003033	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	VASH2	http://www.ncbi.nlm.nih.gov/gene/79805	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003034	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	YTHDC2	http://www.ncbi.nlm.nih.gov/gene/64848	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003035	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-2-5p(ebv-mir-bhrf1-2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000996	Lymphoblastoid cell lines	-	Host	mRNA	ZNF644	http://www.ncbi.nlm.nih.gov/gene/84146	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003036	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BHRF1-3(miR-BHRF1-3)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000998	-	-	Host	mRNA	CXCL11	http://www.ncbi.nlm.nih.gov/gene/6373	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VHID00003037	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BRAT2-3p(ebv-mir-bart2-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004744	Lymphoblastoid cell lines	-	Host	mRNA	IER3	http://www.ncbi.nlm.nih.gov/gene/8870	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003038	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART1(BART-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001067	-	-	Host	Protein	CLIP1	http://www.ncbi.nlm.nih.gov/gene/6249	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	BART1 binds the 3'UTR of CLIP1/CLIP-170 as demonstrated using PAR-CLIP and luciferase assays.
VHID00003039	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART1(BART-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001067	-	-	Host	Protein	LY75	http://www.ncbi.nlm.nih.gov/gene/4065	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.
VHID00003040	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART1(BART-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001067	-	-	Host	Protein	PDE7A	http://www.ncbi.nlm.nih.gov/gene/5150	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.
VHID00003041	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART1(BART-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001067	-	-	Host	Protein	SP100	http://www.ncbi.nlm.nih.gov/gene/6672	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.
VHID00003042	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART1(BART1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001067	-	-	Host	mRNA	CLEC2D	http://www.ncbi.nlm.nih.gov/gene/29121	-	PAR-CLIP.	23170179	In addition, CLEC2D/LLT1 was identified as a target of BART1 and BART3 by PAR-CLIP.
VHID00003043	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART1(miR-BART1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001067	epithelial cell lines	-	Host	Protein	BCL2L11(BimEL)	http://www.ncbi.nlm.nih.gov/gene/396632	Downregulation	Northern Blot analysis and quantitative RT-PCR, Western Blot analysis, Microarray analysis, ciferase Assays.	21333317	Analysis of the BimEL protein levels in cells expressing the miRNAs revealed that its expression was affected by several of the individual miRNAs with cell lines expressing miR-BART1, 3, 9, 11 and 12 all having decreased BimEL levels (Figure 6B and C).
VHID00003044	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART1(miR-BART1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001067	epithelial cell lines	-	Host	mRNA	BCL2L11(BIM)	http://www.ncbi.nlm.nih.gov/gene/396632	Downregulation	Northern Blot analysis and quantitative RT-PCR, Western Blot analysis, Microarray analysis, ciferase Assays.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00003045	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART1(mir-BART1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001067	B cell lymphomagenesis	-	Host	mRNA	CLEC2D	http://www.ncbi.nlm.nih.gov/gene/29121	-	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00003046	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART1(mir-BART1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001067	B cell lymphomagenesis	-	Host	mRNA	DICER1	http://www.ncbi.nlm.nih.gov/gene/23405	-	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00003047	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART1(mir-BART1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001067	B cell lymphomagenesis	-	Host	mRNA	LY75	http://www.ncbi.nlm.nih.gov/gene/4065	-	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00003048	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART1(mir-BART1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001067	B cell lymphomagenesis	-	Host	mRNA	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	-	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00003049	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART1(mir-BART1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001067	B cell lymphomagenesis	-	Host	mRNA	SP100	http://www.ncbi.nlm.nih.gov/gene/6672	-	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00003050	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ABHD13	http://www.ncbi.nlm.nih.gov/gene/84945	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003051	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ABI1	http://www.ncbi.nlm.nih.gov/gene/10006	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003052	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ACADM	http://www.ncbi.nlm.nih.gov/gene/34	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003053	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ACSL4	http://www.ncbi.nlm.nih.gov/gene/2182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003054	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	AK3L1	http://www.ncbi.nlm.nih.gov/gene/645619	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003055	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ANKRD11	http://www.ncbi.nlm.nih.gov/gene/100128265	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003056	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	AP1S3	http://www.ncbi.nlm.nih.gov/gene/130340	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003057	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	AP3S1	http://www.ncbi.nlm.nih.gov/gene/1176	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003058	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ASH1L	http://www.ncbi.nlm.nih.gov/gene/55870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003059	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ASZ1	http://www.ncbi.nlm.nih.gov/gene/136991	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003060	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ATF6	http://www.ncbi.nlm.nih.gov/gene/22926	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003061	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ATP6V0E1	http://www.ncbi.nlm.nih.gov/gene/8992	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003062	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ATP6V1C1	http://www.ncbi.nlm.nih.gov/gene/528	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003063	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	BOD1L	http://www.ncbi.nlm.nih.gov/gene/259282	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003064	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	BTBD3	http://www.ncbi.nlm.nih.gov/gene/22903	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003065	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	BXDC5	http://www.ncbi.nlm.nih.gov/gene/80135 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003066	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	C12orf26	http://www.ncbi.nlm.nih.gov/gene/84190	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003067	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	C12orf30	http://www.ncbi.nlm.nih.gov/gene/80018 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003068	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	C12orf5	http://www.ncbi.nlm.nih.gov/gene/57103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003069	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	C14orf166	http://www.ncbi.nlm.nih.gov/gene/51637	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003070	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	C15orf23	http://www.ncbi.nlm.nih.gov/gene/90417	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003071	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	CCNL1	http://www.ncbi.nlm.nih.gov/gene/57018	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003072	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	CD86	http://www.ncbi.nlm.nih.gov/gene/942	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003073	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	CDC2L5	http://www.ncbi.nlm.nih.gov/gene/8621 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003074	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	CDC2L6	http://www.ncbi.nlm.nih.gov/gene/23097 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003075	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	CDKN1B	http://www.ncbi.nlm.nih.gov/gene/1027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003076	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	CFH	http://www.ncbi.nlm.nih.gov/gene/3075	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003077	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	CHCHD2	http://www.ncbi.nlm.nih.gov/gene/51142	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003078	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	CHIC2	http://www.ncbi.nlm.nih.gov/gene/26511	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003079	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	CHORDC1	http://www.ncbi.nlm.nih.gov/gene/26973	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003080	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	CLINT1	http://www.ncbi.nlm.nih.gov/gene/9685	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003081	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	CMTM6	http://www.ncbi.nlm.nih.gov/gene/54918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003082	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	CPEB4	http://www.ncbi.nlm.nih.gov/gene/80315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003083	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	CREB3L4	http://www.ncbi.nlm.nih.gov/gene/148327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003084	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	CXXC4	http://www.ncbi.nlm.nih.gov/gene/80319	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003085	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	DARS	http://www.ncbi.nlm.nih.gov/gene/1615	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003086	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	DNAJB4	http://www.ncbi.nlm.nih.gov/gene/11080	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003087	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	DUSP11	http://www.ncbi.nlm.nih.gov/gene/8446	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003088	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	DYRK1A	http://www.ncbi.nlm.nih.gov/gene/1859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003089	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	EIF2C2	http://www.ncbi.nlm.nih.gov/gene/27161	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003090	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ELK4	http://www.ncbi.nlm.nih.gov/gene/2005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003091	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	EPDR1	http://www.ncbi.nlm.nih.gov/gene/54749	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003092	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	FAM111A	http://www.ncbi.nlm.nih.gov/gene/63901	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003093	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	FAM126B	http://www.ncbi.nlm.nih.gov/gene/285172	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003094	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	FBXO28	http://www.ncbi.nlm.nih.gov/gene/23219	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003095	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	FBXW7	http://www.ncbi.nlm.nih.gov/gene/55294	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003096	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	FGD4	http://www.ncbi.nlm.nih.gov/gene/121512	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003097	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	FOXN2	http://www.ncbi.nlm.nih.gov/gene/3344	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003098	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	FRS2	http://www.ncbi.nlm.nih.gov/gene/10818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003099	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	FZD6	http://www.ncbi.nlm.nih.gov/gene/8323	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003100	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	HIST1H2BB	http://www.ncbi.nlm.nih.gov/gene/3018	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003101	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	HMGCL	http://www.ncbi.nlm.nih.gov/gene/3155	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003102	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	IREB2	http://www.ncbi.nlm.nih.gov/gene/3658	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003103	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	IRF4	http://www.ncbi.nlm.nih.gov/gene/3662	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003104	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	JMY	http://www.ncbi.nlm.nih.gov/gene/133746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003105	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	KCTD2	http://www.ncbi.nlm.nih.gov/gene/23510	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003106	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	KDELR2	http://www.ncbi.nlm.nih.gov/gene/11014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003107	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	KIAA1279	http://www.ncbi.nlm.nih.gov/gene/26128	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003108	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	KIAA1586	http://www.ncbi.nlm.nih.gov/gene/57691	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003109	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	KLF3	http://www.ncbi.nlm.nih.gov/gene/51274	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003110	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	KLHL3	http://www.ncbi.nlm.nih.gov/gene/26249	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003111	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	KLHL36	http://www.ncbi.nlm.nih.gov/gene/79786	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003112	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	LANCL1	http://www.ncbi.nlm.nih.gov/gene/10314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003113	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	LDLR	http://www.ncbi.nlm.nih.gov/gene/3949	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003114	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	LIN7C	http://www.ncbi.nlm.nih.gov/gene/55327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003115	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	LMBR1	http://www.ncbi.nlm.nih.gov/gene/64327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003116	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	LRRFIP1	http://www.ncbi.nlm.nih.gov/gene/9208	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003117	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	LSM11	http://www.ncbi.nlm.nih.gov/gene/134353	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003118	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	MAP4K3	http://www.ncbi.nlm.nih.gov/gene/8491	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003119	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	MAT2B	http://www.ncbi.nlm.nih.gov/gene/27430	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003120	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	MBNL1	http://www.ncbi.nlm.nih.gov/gene/4154	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003121	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	MBNL3	http://www.ncbi.nlm.nih.gov/gene/55796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003122	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	MCL1	http://www.ncbi.nlm.nih.gov/gene/4170	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003123	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	MED13L	http://www.ncbi.nlm.nih.gov/gene/23389	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003124	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	METAP2	http://www.ncbi.nlm.nih.gov/gene/10988	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003125	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	MEX3B	http://www.ncbi.nlm.nih.gov/gene/84206	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003126	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	MEX3C	http://www.ncbi.nlm.nih.gov/gene/51320	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003127	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	MOBKL3	http://www.ncbi.nlm.nih.gov/gene/25843	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003128	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	MOCS3	http://www.ncbi.nlm.nih.gov/gene/27304	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003129	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	MRFAP1	http://www.ncbi.nlm.nih.gov/gene/93621	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003130	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	MSN	http://www.ncbi.nlm.nih.gov/gene/4478	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003131	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	MTFMT	http://www.ncbi.nlm.nih.gov/gene/123263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003132	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	NAPB	http://www.ncbi.nlm.nih.gov/gene/63908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003133	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	NEK7	http://www.ncbi.nlm.nih.gov/gene/140609	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003134	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	NFIA	http://www.ncbi.nlm.nih.gov/gene/4774	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003135	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003136	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	NOTCH1	http://www.ncbi.nlm.nih.gov/gene/4851	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003137	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	PALM2-AKAP2	http://www.ncbi.nlm.nih.gov/gene/114299	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003138	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	PATL1	http://www.ncbi.nlm.nih.gov/gene/219988	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003139	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	PBXIP1	http://www.ncbi.nlm.nih.gov/gene/57326	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003140	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	PHF6	http://www.ncbi.nlm.nih.gov/gene/84295	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003141	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	POLR1E	http://www.ncbi.nlm.nih.gov/gene/64425	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003142	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	QRICH1	http://www.ncbi.nlm.nih.gov/gene/54870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003143	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	RAB7A	http://www.ncbi.nlm.nih.gov/gene/7879	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003144	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	RAD21	http://www.ncbi.nlm.nih.gov/gene/5885	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003145	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	RB1CC1	http://www.ncbi.nlm.nih.gov/gene/9821	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003146	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	RC3H2	http://www.ncbi.nlm.nih.gov/gene/54542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003147	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	REV3L	http://www.ncbi.nlm.nih.gov/gene/5980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003148	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	RFK	http://www.ncbi.nlm.nih.gov/gene/55312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003149	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	RHOU	http://www.ncbi.nlm.nih.gov/gene/58480	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003150	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	RMND5A	http://www.ncbi.nlm.nih.gov/gene/64795	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003151	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	RNF19A	http://www.ncbi.nlm.nih.gov/gene/25897	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003152	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	RYBP	http://www.ncbi.nlm.nih.gov/gene/23429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003153	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	SAP18	http://www.ncbi.nlm.nih.gov/gene/10284	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003154	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	SEC23A	http://www.ncbi.nlm.nih.gov/gene/10484	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003155	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	SEPHS1	http://www.ncbi.nlm.nih.gov/gene/389873	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003156	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	SFPQ	http://www.ncbi.nlm.nih.gov/gene/6421	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003157	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	SFRS18	http://www.ncbi.nlm.nih.gov/gene/25957	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003158	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	SLC38A2	http://www.ncbi.nlm.nih.gov/gene/54407	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003159	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	SMAD4	http://www.ncbi.nlm.nih.gov/gene/4089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003160	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	SMC1A	http://www.ncbi.nlm.nih.gov/gene/8243	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003161	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	SMC5	http://www.ncbi.nlm.nih.gov/gene/23137	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003162	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	SNAPC3	http://www.ncbi.nlm.nih.gov/gene/6619	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003163	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	SNRK	http://www.ncbi.nlm.nih.gov/gene/54861	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003164	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	SNX10	http://www.ncbi.nlm.nih.gov/gene/29887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003165	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	SRI	http://www.ncbi.nlm.nih.gov/gene/6717	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003166	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	SSFA2	http://www.ncbi.nlm.nih.gov/gene/6744	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003167	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	TAF8	http://www.ncbi.nlm.nih.gov/gene/129685	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003168	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003169	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	TRA2A	http://www.ncbi.nlm.nih.gov/gene/29896	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003170	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	TRIP13	http://www.ncbi.nlm.nih.gov/gene/9319	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003171	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	TRPM8	http://www.ncbi.nlm.nih.gov/gene/79054	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003172	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	UBE2E1	http://www.ncbi.nlm.nih.gov/gene/7324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003173	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	UBN2	http://www.ncbi.nlm.nih.gov/gene/254048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003174	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	UNC5CL	http://www.ncbi.nlm.nih.gov/gene/222643	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003175	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	UXS1	http://www.ncbi.nlm.nih.gov/gene/80146	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003176	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	YOD1	http://www.ncbi.nlm.nih.gov/gene/55432	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003177	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	YWHAG	http://www.ncbi.nlm.nih.gov/gene/7532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003178	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ZBED4	http://www.ncbi.nlm.nih.gov/gene/9889	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003179	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ZC3H11A	http://www.ncbi.nlm.nih.gov/gene/9877	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003180	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ZC3H13	http://www.ncbi.nlm.nih.gov/gene/23091	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003181	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ZFAND5	http://www.ncbi.nlm.nih.gov/gene/732229	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003182	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ZMAT3	http://www.ncbi.nlm.nih.gov/gene/64393	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003183	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ZNF451	http://www.ncbi.nlm.nih.gov/gene/26036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003184	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ZNF592	http://www.ncbi.nlm.nih.gov/gene/9640	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003185	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(ebv-mir-bart10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	BC-1	-	Host	mRNA	ZNF608	http://www.ncbi.nlm.nih.gov/gene/57507	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003186	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART11(miR-BART11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003733	epithelial cell lines	-	Host	Protein	BCL2L11(BimEL)	http://www.ncbi.nlm.nih.gov/gene/396632	Downregulation	Northern Blot analysis and quantitative RT-PCR, Western Blot analysis, Microarray analysis, ciferase Assays.	21333317	Analysis of the BimEL protein levels in cells expressing the miRNAs revealed that its expression was affected by several of the individual miRNAs with cell lines expressing miR-BART1, 3, 9, 11 and 12 all having decreased BimEL levels (Figure 6B and C).
VHID00003187	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART11(miR-BART11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003733	epithelial cell lines	-	Host	mRNA	BCL2L11(BIM)	http://www.ncbi.nlm.nih.gov/gene/396632	Downregulation	Northern Blot analysis and quantitative RT-PCR, Western Blot analysis, Microarray analysis, ciferase Assays.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00003188	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	MARCH9		-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003189	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	ACLY	http://www.ncbi.nlm.nih.gov/gene/47	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003190	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	ACTR1B	http://www.ncbi.nlm.nih.gov/gene/10120	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003191	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	APLP2	http://www.ncbi.nlm.nih.gov/gene/334	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003192	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	ATL2	http://www.ncbi.nlm.nih.gov/gene/64225	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003193	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	BNC2	http://www.ncbi.nlm.nih.gov/gene/54796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003194	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	C22orf30	http://www.ncbi.nlm.nih.gov/gene/253143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003195	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	C3orf23	http://www.ncbi.nlm.nih.gov/gene/285343	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003196	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	CDKN1B	http://www.ncbi.nlm.nih.gov/gene/1027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003197	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	CLSTN1	http://www.ncbi.nlm.nih.gov/gene/22883	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003198	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	CTDSPL2	http://www.ncbi.nlm.nih.gov/gene/51496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003199	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	FYCO1	http://www.ncbi.nlm.nih.gov/gene/79443	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003200	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	ISG20L2	http://www.ncbi.nlm.nih.gov/gene/81875	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003201	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	KIAA0831	http://www.ncbi.nlm.nih.gov/gene/22863	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003202	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	KIAA1211	http://www.ncbi.nlm.nih.gov/gene/57482	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003203	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	LRRK1	http://www.ncbi.nlm.nih.gov/gene/79705	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003204	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	MKL2	http://www.ncbi.nlm.nih.gov/gene/57496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003205	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	MLLT3	http://www.ncbi.nlm.nih.gov/gene/4300	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003206	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	NCBP2	http://www.ncbi.nlm.nih.gov/gene/22916	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003207	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	NHLRC2	http://www.ncbi.nlm.nih.gov/gene/374354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003208	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	PI4KB	http://www.ncbi.nlm.nih.gov/gene/5298	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003209	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	PPIB	http://www.ncbi.nlm.nih.gov/gene/5479	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003210	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	PPP1R10	http://www.ncbi.nlm.nih.gov/gene/5514	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003211	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	RAB30	http://www.ncbi.nlm.nih.gov/gene/27314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003212	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	RIT1	http://www.ncbi.nlm.nih.gov/gene/6016	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003213	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	RPS6KB1	http://www.ncbi.nlm.nih.gov/gene/6198	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003214	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	SCD	http://www.ncbi.nlm.nih.gov/gene/6319	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003215	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	SLAMF7	http://www.ncbi.nlm.nih.gov/gene/57823	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003216	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	SLC38A2	http://www.ncbi.nlm.nih.gov/gene/54407	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003217	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	STAT3	http://www.ncbi.nlm.nih.gov/gene/6774	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003218	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	TADA1L	http://www.ncbi.nlm.nih.gov/gene/117143 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003219	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	TOMM5	http://www.ncbi.nlm.nih.gov/gene/401505	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003220	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	TRIM26	http://www.ncbi.nlm.nih.gov/gene/7726	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003221	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	USP22	http://www.ncbi.nlm.nih.gov/gene/23326	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003222	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART12(ebv-mir-bart12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003734	BC-1	-	Host	mRNA	WDR32	http://www.ncbi.nlm.nih.gov/gene/79269 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003223	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	AASDHPPT	http://www.ncbi.nlm.nih.gov/gene/60496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003224	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	ACOT9	http://www.ncbi.nlm.nih.gov/gene/23597	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003225	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	ADAM17	http://www.ncbi.nlm.nih.gov/gene/6868	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003226	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	ARPP19	http://www.ncbi.nlm.nih.gov/gene/646227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003227	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	BAZ2B	http://www.ncbi.nlm.nih.gov/gene/29994	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003228	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	BCORL1	http://www.ncbi.nlm.nih.gov/gene/63035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003229	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	BNC2	http://www.ncbi.nlm.nih.gov/gene/54796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003230	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	C1orf55	http://www.ncbi.nlm.nih.gov/gene/163859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003231	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	C4orf46	http://www.ncbi.nlm.nih.gov/gene/201725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003232	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	C5orf24	http://www.ncbi.nlm.nih.gov/gene/134553	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003233	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	C6orf120	http://www.ncbi.nlm.nih.gov/gene/387263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003234	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	C6orf211	http://www.ncbi.nlm.nih.gov/gene/79624	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003235	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	CCNE2	http://www.ncbi.nlm.nih.gov/gene/9134	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003236	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	CDC27	http://www.ncbi.nlm.nih.gov/gene/996	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003237	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	CDC73	http://www.ncbi.nlm.nih.gov/gene/79577	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003238	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	CDCA5	http://www.ncbi.nlm.nih.gov/gene/113130	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003239	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	CLDND1	http://www.ncbi.nlm.nih.gov/gene/56650	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003240	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	CLGN	http://www.ncbi.nlm.nih.gov/gene/1047	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003241	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	CLPX	http://www.ncbi.nlm.nih.gov/gene/10845	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003242	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	CPEB4	http://www.ncbi.nlm.nih.gov/gene/80315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003243	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	CSTF2T	http://www.ncbi.nlm.nih.gov/gene/23283	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003244	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	CXCR4	http://www.ncbi.nlm.nih.gov/gene/7852	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003245	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	CYP4F3	http://www.ncbi.nlm.nih.gov/gene/4051	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003246	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	DDI2	http://www.ncbi.nlm.nih.gov/gene/84301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003247	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	DENND5B	http://www.ncbi.nlm.nih.gov/gene/160518	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003248	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	DLG5	http://www.ncbi.nlm.nih.gov/gene/9231	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003249	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	EAF1	http://www.ncbi.nlm.nih.gov/gene/85403	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003250	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	EIF5	http://www.ncbi.nlm.nih.gov/gene/1983	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003251	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	ELF2	http://www.ncbi.nlm.nih.gov/gene/1998	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003252	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	ELK4	http://www.ncbi.nlm.nih.gov/gene/2005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003253	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	ENC1	http://www.ncbi.nlm.nih.gov/gene/8507	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003254	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	EPHA5	http://www.ncbi.nlm.nih.gov/gene/2044	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003255	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	FAM49B	http://www.ncbi.nlm.nih.gov/gene/51571	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003256	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	FAM63B	http://www.ncbi.nlm.nih.gov/gene/54629	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003257	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	FEM1C	http://www.ncbi.nlm.nih.gov/gene/56929	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003258	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	FOXP2	http://www.ncbi.nlm.nih.gov/gene/93986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003259	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	FRMD5	http://www.ncbi.nlm.nih.gov/gene/84978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003260	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	FZD5	http://www.ncbi.nlm.nih.gov/gene/7855	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003261	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	GAB1	http://www.ncbi.nlm.nih.gov/gene/2549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003262	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	IAH1	http://www.ncbi.nlm.nih.gov/gene/285148	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003263	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	IER3IP1	http://www.ncbi.nlm.nih.gov/gene/51124	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003264	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	IFNAR1	http://www.ncbi.nlm.nih.gov/gene/3454	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003265	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	IK	http://www.ncbi.nlm.nih.gov/gene/3550	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003266	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	IL10	http://www.ncbi.nlm.nih.gov/gene/3586	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003267	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	JMY	http://www.ncbi.nlm.nih.gov/gene/133746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003268	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	KIAA0494	http://www.ncbi.nlm.nih.gov/gene/9813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003269	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	KLHL36	http://www.ncbi.nlm.nih.gov/gene/79786	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003270	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	KLHL8	http://www.ncbi.nlm.nih.gov/gene/57563	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003271	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	KRI1	http://www.ncbi.nlm.nih.gov/gene/65095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003272	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	LSM14B	http://www.ncbi.nlm.nih.gov/gene/149986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003273	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	MAPK8	http://www.ncbi.nlm.nih.gov/gene/5599	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003274	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	MCL1	http://www.ncbi.nlm.nih.gov/gene/4170	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003275	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	MED13	http://www.ncbi.nlm.nih.gov/gene/9969	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003276	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	MEX3C	http://www.ncbi.nlm.nih.gov/gene/51320	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003277	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	MKLN1	http://www.ncbi.nlm.nih.gov/gene/4289	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003278	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	MLLT3	http://www.ncbi.nlm.nih.gov/gene/4300	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003279	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	MOBKL1A	http://www.ncbi.nlm.nih.gov/gene/92597	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003280	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	NAP1L5	http://www.ncbi.nlm.nih.gov/gene/266812	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003281	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	NBN	http://www.ncbi.nlm.nih.gov/gene/4683	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003282	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	NDUFB2	http://www.ncbi.nlm.nih.gov/gene/4708	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003283	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	NKIRAS2	http://www.ncbi.nlm.nih.gov/gene/28511	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003284	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	NUDT19	http://www.ncbi.nlm.nih.gov/gene/390916	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003285	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	OXR1	http://www.ncbi.nlm.nih.gov/gene/55074	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003286	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	PAK2	http://www.ncbi.nlm.nih.gov/gene/5062	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003287	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	PCBP2	http://www.ncbi.nlm.nih.gov/gene/5094	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003288	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	PCYT1A	http://www.ncbi.nlm.nih.gov/gene/5130	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003289	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	PDCD4	http://www.ncbi.nlm.nih.gov/gene/27250	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003290	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	PEX13	http://www.ncbi.nlm.nih.gov/gene/5194	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003291	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	PMAIP1	http://www.ncbi.nlm.nih.gov/gene/5366	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003292	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	PPM1A	http://www.ncbi.nlm.nih.gov/gene/5494	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003293	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	PPP1CB	http://www.ncbi.nlm.nih.gov/gene/245711	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003294	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	PPP2R5C	http://www.ncbi.nlm.nih.gov/gene/5527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003295	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	PRDM4	http://www.ncbi.nlm.nih.gov/gene/11108	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003296	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	PURB	http://www.ncbi.nlm.nih.gov/gene/5814	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003297	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	QTRTD1	http://www.ncbi.nlm.nih.gov/gene/79691	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003298	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	RBBP9	http://www.ncbi.nlm.nih.gov/gene/10741	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003299	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	RBL2	http://www.ncbi.nlm.nih.gov/gene/5934	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003300	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	RBM33	http://www.ncbi.nlm.nih.gov/gene/155435	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003301	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	RBM39	http://www.ncbi.nlm.nih.gov/gene/643167	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003302	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	RBM4B	http://www.ncbi.nlm.nih.gov/gene/83759	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003303	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	REPIN1	http://www.ncbi.nlm.nih.gov/gene/29803	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003304	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	REST	http://www.ncbi.nlm.nih.gov/gene/5978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003305	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	RMND5A	http://www.ncbi.nlm.nih.gov/gene/64795	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003306	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	RNMTL1	http://www.ncbi.nlm.nih.gov/gene/55178	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003307	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	ROCK1	http://www.ncbi.nlm.nih.gov/gene/727758	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003308	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	RPL36AL	http://www.ncbi.nlm.nih.gov/gene/6166	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003309	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	SAR1A	http://www.ncbi.nlm.nih.gov/gene/56681	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003310	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	SCOC	http://www.ncbi.nlm.nih.gov/gene/60592	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003311	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	SENP1	http://www.ncbi.nlm.nih.gov/gene/29843	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003312	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	SETD6	http://www.ncbi.nlm.nih.gov/gene/79918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003313	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	SFRS11	http://www.ncbi.nlm.nih.gov/gene/9295	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003314	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	SGPP1	http://www.ncbi.nlm.nih.gov/gene/81537	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003315	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	SLC19A2	http://www.ncbi.nlm.nih.gov/gene/10560	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003316	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	SLC30A9	http://www.ncbi.nlm.nih.gov/gene/10463	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003317	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	SLC44A5	http://www.ncbi.nlm.nih.gov/gene/204962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003318	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	SNX29	http://www.ncbi.nlm.nih.gov/gene/92017	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003319	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	SP3	http://www.ncbi.nlm.nih.gov/gene/6670	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003320	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	STRN	http://www.ncbi.nlm.nih.gov/gene/6801	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003321	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	TANC2	http://www.ncbi.nlm.nih.gov/gene/26115	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003322	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	TBC1D20	http://www.ncbi.nlm.nih.gov/gene/128637	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003323	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	TCF3	http://www.ncbi.nlm.nih.gov/gene/6929	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003324	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	TET3	http://www.ncbi.nlm.nih.gov/gene/200424	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003325	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	TGFBR3	http://www.ncbi.nlm.nih.gov/gene/7049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003326	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	THUMPD1	http://www.ncbi.nlm.nih.gov/gene/55623	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003327	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	TIAL1	http://www.ncbi.nlm.nih.gov/gene/7073	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003328	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	TMED5	http://www.ncbi.nlm.nih.gov/gene/50999	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003329	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	TMEM129	http://www.ncbi.nlm.nih.gov/gene/92305	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003330	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	TMF1	http://www.ncbi.nlm.nih.gov/gene/7110	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003331	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	TOMM20	http://www.ncbi.nlm.nih.gov/gene/100129272	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003332	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	TOR1AIP1	http://www.ncbi.nlm.nih.gov/gene/26092	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003333	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003334	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	TRIT1	http://www.ncbi.nlm.nih.gov/gene/54802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003335	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	UBE2L3	http://www.ncbi.nlm.nih.gov/gene/7332	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003336	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	UBE2W	http://www.ncbi.nlm.nih.gov/gene/55284	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003337	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	UBQLN1	http://www.ncbi.nlm.nih.gov/gene/29979	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003338	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	UHRF1BP1	http://www.ncbi.nlm.nih.gov/gene/54887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003339	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	USP46	http://www.ncbi.nlm.nih.gov/gene/64854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003340	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	USP53	http://www.ncbi.nlm.nih.gov/gene/54532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003341	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	VTA1	http://www.ncbi.nlm.nih.gov/gene/51534	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003342	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	WDR32	http://www.ncbi.nlm.nih.gov/gene/79269 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003343	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	ZBTB11	http://www.ncbi.nlm.nih.gov/gene/27107	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003344	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	ZDHHC11	http://www.ncbi.nlm.nih.gov/gene/79844	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003345	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	ZNF192	http://www.ncbi.nlm.nih.gov/gene/7745	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003346	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	ZNF330	http://www.ncbi.nlm.nih.gov/gene/27309	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003347	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	ZNF441	http://www.ncbi.nlm.nih.gov/gene/126068	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003348	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	ZNF518A	http://www.ncbi.nlm.nih.gov/gene/9849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003349	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	ZNF765	http://www.ncbi.nlm.nih.gov/gene/91661	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003350	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(ebv-mir-bart13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	BC-1	-	Host	mRNA	ZNFX1	http://www.ncbi.nlm.nih.gov/gene/57169	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003351	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART13(mir-BART13)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003735	B cell lymphomagenesis	-	Host	mRNA	CAPRIN2	http://www.ncbi.nlm.nih.gov/gene/65981	-	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00003352	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	AAGAB	http://www.ncbi.nlm.nih.gov/gene/79719	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003353	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	AASDHPPT	http://www.ncbi.nlm.nih.gov/gene/60496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003354	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ACOX1	http://www.ncbi.nlm.nih.gov/gene/51	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003355	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ACP1	http://www.ncbi.nlm.nih.gov/gene/52	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003356	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ACTL6A	http://www.ncbi.nlm.nih.gov/gene/86	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003357	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	AFF4	http://www.ncbi.nlm.nih.gov/gene/27125	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003358	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	AKAP11	http://www.ncbi.nlm.nih.gov/gene/11215	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003359	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ANKRD13C	http://www.ncbi.nlm.nih.gov/gene/81573	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003360	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ANP32E	http://www.ncbi.nlm.nih.gov/gene/81611	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003361	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ARFGEF1	http://www.ncbi.nlm.nih.gov/gene/10565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003362	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ARHGAP5	http://www.ncbi.nlm.nih.gov/gene/394	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003363	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ASZ1	http://www.ncbi.nlm.nih.gov/gene/136991	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003364	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ATF2	http://www.ncbi.nlm.nih.gov/gene/1386	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003365	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ATP2A2	http://www.ncbi.nlm.nih.gov/gene/488	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003366	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ATP6V1B2	http://www.ncbi.nlm.nih.gov/gene/526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003367	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ATP6V1C1	http://www.ncbi.nlm.nih.gov/gene/528	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003368	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ATPAF1	http://www.ncbi.nlm.nih.gov/gene/64756	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003369	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ATXN1	http://www.ncbi.nlm.nih.gov/gene/6310	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003370	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	BAG2	http://www.ncbi.nlm.nih.gov/gene/9532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003371	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	BCL2	http://www.ncbi.nlm.nih.gov/gene/596	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003372	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	BNC2	http://www.ncbi.nlm.nih.gov/gene/54796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003373	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	BRI3BP	http://www.ncbi.nlm.nih.gov/gene/140707	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003374	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	BRWD1	http://www.ncbi.nlm.nih.gov/gene/54014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003375	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	BTBD1	http://www.ncbi.nlm.nih.gov/gene/53339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003376	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	BTBD7	http://www.ncbi.nlm.nih.gov/gene/55727	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003377	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C11orf30	http://www.ncbi.nlm.nih.gov/gene/56946	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003378	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C12orf30	http://www.ncbi.nlm.nih.gov/gene/80018 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003379	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C12orf5	http://www.ncbi.nlm.nih.gov/gene/57103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003380	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C12orf76	http://www.ncbi.nlm.nih.gov/gene/400073	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003381	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C14orf126	http://www.ncbi.nlm.nih.gov/gene/112487	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003382	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C14orf4	http://www.ncbi.nlm.nih.gov/gene/64207	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003383	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C16orf28	http://www.ncbi.nlm.nih.gov/gene/64718	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003384	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C18orf54	http://www.ncbi.nlm.nih.gov/gene/162681	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003385	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C18orf55	http://www.ncbi.nlm.nih.gov/gene/29090	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003386	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C19orf12	http://www.ncbi.nlm.nih.gov/gene/83636	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003387	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C3orf64	http://www.ncbi.nlm.nih.gov/gene/285203	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003388	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C4orf32	http://www.ncbi.nlm.nih.gov/gene/132720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003389	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C5orf24	http://www.ncbi.nlm.nih.gov/gene/134553	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003390	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C5orf41	http://www.ncbi.nlm.nih.gov/gene/153222	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003391	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C5orf51	http://www.ncbi.nlm.nih.gov/gene/285636	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003392	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C6orf167	http://www.ncbi.nlm.nih.gov/gene/253714	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003393	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C6orf48	http://www.ncbi.nlm.nih.gov/gene/26797	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003394	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C7orf60	http://www.ncbi.nlm.nih.gov/gene/154743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003395	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	C8orf76	http://www.ncbi.nlm.nih.gov/gene/84933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003396	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CALM1	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003397	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CAND1	http://www.ncbi.nlm.nih.gov/gene/55832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003398	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CANX	http://www.ncbi.nlm.nih.gov/gene/821	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003399	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CASC4	http://www.ncbi.nlm.nih.gov/gene/113201	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003400	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CASP6	http://www.ncbi.nlm.nih.gov/gene/839	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003401	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CAV1	http://www.ncbi.nlm.nih.gov/gene/857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003402	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CBFA2T2	http://www.ncbi.nlm.nih.gov/gene/9139	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003403	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CBX5	http://www.ncbi.nlm.nih.gov/gene/23468	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003404	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CCNB1	http://www.ncbi.nlm.nih.gov/gene/891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003405	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CCND2	http://www.ncbi.nlm.nih.gov/gene/894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003406	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CCNJ	http://www.ncbi.nlm.nih.gov/gene/54619	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003407	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CENPL	http://www.ncbi.nlm.nih.gov/gene/91687	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003408	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CFLAR	http://www.ncbi.nlm.nih.gov/gene/8837	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003409	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CHST15	http://www.ncbi.nlm.nih.gov/gene/51363	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003410	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CLIC4	http://www.ncbi.nlm.nih.gov/gene/25932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003411	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CLOCK	http://www.ncbi.nlm.nih.gov/gene/9575	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003412	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CNBP	http://www.ncbi.nlm.nih.gov/gene/7555	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003413	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	COMMD2	http://www.ncbi.nlm.nih.gov/gene/51122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003414	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	COPS2	http://www.ncbi.nlm.nih.gov/gene/9318	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003415	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CPEB2	http://www.ncbi.nlm.nih.gov/gene/132864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003416	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CPEB4	http://www.ncbi.nlm.nih.gov/gene/80315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003417	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CPNE3	http://www.ncbi.nlm.nih.gov/gene/8895	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003418	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CPNE8	http://www.ncbi.nlm.nih.gov/gene/144402	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003419	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CPSF6	http://www.ncbi.nlm.nih.gov/gene/11052	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003420	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CSDE1	http://www.ncbi.nlm.nih.gov/gene/7812	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003421	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CSGALNACT2	http://www.ncbi.nlm.nih.gov/gene/55454	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003422	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	CSRP1	http://www.ncbi.nlm.nih.gov/gene/1465	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003423	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	DCLRE1B	http://www.ncbi.nlm.nih.gov/gene/64858	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003424	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	DCP1A	http://www.ncbi.nlm.nih.gov/gene/55802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003425	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	DHCR7	http://www.ncbi.nlm.nih.gov/gene/1717	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003426	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	DHX8	http://www.ncbi.nlm.nih.gov/gene/1659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003427	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	DIXDC1	http://www.ncbi.nlm.nih.gov/gene/85458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003428	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	DMXL1	http://www.ncbi.nlm.nih.gov/gene/1657	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003429	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	DNAJA1	http://www.ncbi.nlm.nih.gov/gene/3301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003430	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	DUSP22	http://www.ncbi.nlm.nih.gov/gene/56940	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003431	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	DYNC1LI2	http://www.ncbi.nlm.nih.gov/gene/1783	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003432	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	E2F3	http://www.ncbi.nlm.nih.gov/gene/1871	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003433	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	E2F7	http://www.ncbi.nlm.nih.gov/gene/144455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003434	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	EIF2C1	http://www.ncbi.nlm.nih.gov/gene/26523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003435	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	EIF2C2	http://www.ncbi.nlm.nih.gov/gene/27161	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003436	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	EIF2S1	http://www.ncbi.nlm.nih.gov/gene/1965	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003437	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ELAVL1	http://www.ncbi.nlm.nih.gov/gene/1994	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003438	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ELK4	http://www.ncbi.nlm.nih.gov/gene/2005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003439	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ERBB2IP	http://www.ncbi.nlm.nih.gov/gene/55914	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003440	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	EXD2	http://www.ncbi.nlm.nih.gov/gene/55218	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003441	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	EXOC8	http://www.ncbi.nlm.nih.gov/gene/149371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003442	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	FAM117B	http://www.ncbi.nlm.nih.gov/gene/150864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003443	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	FAM126B	http://www.ncbi.nlm.nih.gov/gene/285172	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003444	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	FAM172A	http://www.ncbi.nlm.nih.gov/gene/83989	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003445	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	FAM73A	http://www.ncbi.nlm.nih.gov/gene/374986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003446	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	FAM76B	http://www.ncbi.nlm.nih.gov/gene/143684	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003447	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	FEM1C	http://www.ncbi.nlm.nih.gov/gene/56929	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003448	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	FEZ2	http://www.ncbi.nlm.nih.gov/gene/9637	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003449	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	FNDC3A	http://www.ncbi.nlm.nih.gov/gene/22862	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003450	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	FUNDC1	http://www.ncbi.nlm.nih.gov/gene/139341	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003451	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	FYCO1	http://www.ncbi.nlm.nih.gov/gene/79443	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003452	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	FZD6	http://www.ncbi.nlm.nih.gov/gene/8323	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003453	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	G3BP1	http://www.ncbi.nlm.nih.gov/gene/10146	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003454	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	GAB1	http://www.ncbi.nlm.nih.gov/gene/2549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003455	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	GLT25D2	http://www.ncbi.nlm.nih.gov/gene/23127	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003456	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	GMEB2	http://www.ncbi.nlm.nih.gov/gene/26205	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003457	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	GNA13	http://www.ncbi.nlm.nih.gov/gene/10672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003458	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	GNL3L	http://www.ncbi.nlm.nih.gov/gene/54552	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003459	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	GOPC	http://www.ncbi.nlm.nih.gov/gene/57120	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003460	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	GRSF1	http://www.ncbi.nlm.nih.gov/gene/2926	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003461	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	H3F3B	http://www.ncbi.nlm.nih.gov/gene/440926	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003462	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	HACE1	http://www.ncbi.nlm.nih.gov/gene/57531	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003463	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	HIAT1	http://www.ncbi.nlm.nih.gov/gene/64645	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003464	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	HIPK1	http://www.ncbi.nlm.nih.gov/gene/204851	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003465	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	HNRNPUL1	http://www.ncbi.nlm.nih.gov/gene/11100	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003466	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	HOMER1	http://www.ncbi.nlm.nih.gov/gene/9456	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003467	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	HOOK3	http://www.ncbi.nlm.nih.gov/gene/84376	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003468	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	HSPA4	http://www.ncbi.nlm.nih.gov/gene/3308	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003469	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	IDH3A	http://www.ncbi.nlm.nih.gov/gene/3419	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003470	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	IGF2R	http://www.ncbi.nlm.nih.gov/gene/3482	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003471	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	IL6ST	http://www.ncbi.nlm.nih.gov/gene/3572	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003472	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	IMPAD1	http://www.ncbi.nlm.nih.gov/gene/54928	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003473	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	IQGAP1	http://www.ncbi.nlm.nih.gov/gene/8826	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003474	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	IRF1	http://www.ncbi.nlm.nih.gov/gene/3659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003475	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ITM2A	http://www.ncbi.nlm.nih.gov/gene/9452	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003476	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	JAKMIP2	http://www.ncbi.nlm.nih.gov/gene/9832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003477	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	KCMF1	http://www.ncbi.nlm.nih.gov/gene/56888	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003478	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	KIAA0776	http://www.ncbi.nlm.nih.gov/gene/23376	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003479	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	KIAA1407	http://www.ncbi.nlm.nih.gov/gene/57577	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003480	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	KIAA1432	http://www.ncbi.nlm.nih.gov/gene/57589	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003481	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	KIAA2018	http://www.ncbi.nlm.nih.gov/gene/205717	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003482	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	KIF2A	http://www.ncbi.nlm.nih.gov/gene/3796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003483	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	KLHL15	http://www.ncbi.nlm.nih.gov/gene/80311	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003484	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	KLHL23	http://www.ncbi.nlm.nih.gov/gene/151230	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003485	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	KPNA5	http://www.ncbi.nlm.nih.gov/gene/3841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003486	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	KRAS	http://www.ncbi.nlm.nih.gov/gene/3845	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003487	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	LAPTM4A	http://www.ncbi.nlm.nih.gov/gene/9741	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003488	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	LARP4	http://www.ncbi.nlm.nih.gov/gene/113251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003489	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	LATS1	http://www.ncbi.nlm.nih.gov/gene/9113	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003490	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	LCOR	http://www.ncbi.nlm.nih.gov/gene/84458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003491	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	LEMD3	http://www.ncbi.nlm.nih.gov/gene/23592	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003492	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	LGR4	http://www.ncbi.nlm.nih.gov/gene/55366	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003493	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	LIN7C	http://www.ncbi.nlm.nih.gov/gene/55327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003494	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	LMBR1	http://www.ncbi.nlm.nih.gov/gene/64327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003495	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	LRIG2	http://www.ncbi.nlm.nih.gov/gene/9860	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003496	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	LRRC58	http://www.ncbi.nlm.nih.gov/gene/116064	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003497	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	LZIC	http://www.ncbi.nlm.nih.gov/gene/84328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003498	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	MAK16	http://www.ncbi.nlm.nih.gov/gene/84549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003499	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	MAL2	http://www.ncbi.nlm.nih.gov/gene/114569	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003500	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	MANEA	http://www.ncbi.nlm.nih.gov/gene/79694	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003501	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	MDM4	http://www.ncbi.nlm.nih.gov/gene/4194	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003502	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	MED13	http://www.ncbi.nlm.nih.gov/gene/9969	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003503	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	MED13L	http://www.ncbi.nlm.nih.gov/gene/23389	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003504	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	MIER1	http://www.ncbi.nlm.nih.gov/gene/57708	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003505	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	MIER3	http://www.ncbi.nlm.nih.gov/gene/166968	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003506	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	MKRN1	http://www.ncbi.nlm.nih.gov/gene/23608	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003507	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	MMGT1	http://www.ncbi.nlm.nih.gov/gene/93380	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003508	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	MTAP	http://www.ncbi.nlm.nih.gov/gene/4507	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003509	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	MTDH	http://www.ncbi.nlm.nih.gov/gene/92140	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003510	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	MTF2	http://www.ncbi.nlm.nih.gov/gene/22823	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003511	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	MTX3	http://www.ncbi.nlm.nih.gov/gene/345778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003512	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	MXD1	http://www.ncbi.nlm.nih.gov/gene/4084	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003513	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NARS	http://www.ncbi.nlm.nih.gov/gene/4677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003514	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NDEL1	http://www.ncbi.nlm.nih.gov/gene/81565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003515	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NDUFB5	http://www.ncbi.nlm.nih.gov/gene/4711	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003516	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NDUFC1	http://www.ncbi.nlm.nih.gov/gene/4717	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003517	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NFIA	http://www.ncbi.nlm.nih.gov/gene/4774	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003518	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NFYC	http://www.ncbi.nlm.nih.gov/gene/4802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003519	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NHLRC2	http://www.ncbi.nlm.nih.gov/gene/374354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003520	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NHLRC3	http://www.ncbi.nlm.nih.gov/gene/387921	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003521	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NIN	http://www.ncbi.nlm.nih.gov/gene/51199	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003522	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NLK	http://www.ncbi.nlm.nih.gov/gene/51701	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003523	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NOB1	http://www.ncbi.nlm.nih.gov/gene/100132364	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003524	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NOM1	http://www.ncbi.nlm.nih.gov/gene/64434	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003525	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NR1D2	http://www.ncbi.nlm.nih.gov/gene/9975	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003526	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NSD1	http://www.ncbi.nlm.nih.gov/gene/64324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003527	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NUCKS1	http://www.ncbi.nlm.nih.gov/gene/64710	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003528	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003529	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	NUP54	http://www.ncbi.nlm.nih.gov/gene/53371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003530	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ORC2L	http://www.ncbi.nlm.nih.gov/gene/4999	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003531	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	OSBPL8	http://www.ncbi.nlm.nih.gov/gene/114882	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003532	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	OSGIN2	http://www.ncbi.nlm.nih.gov/gene/734	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003533	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	OTUD7B	http://www.ncbi.nlm.nih.gov/gene/56957	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003534	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PANK3	http://www.ncbi.nlm.nih.gov/gene/79646	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003535	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PCDH18	http://www.ncbi.nlm.nih.gov/gene/54510	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003536	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PCGF3	http://www.ncbi.nlm.nih.gov/gene/10336	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003537	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PDIK1L	http://www.ncbi.nlm.nih.gov/gene/149420	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003538	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PDS5A	http://www.ncbi.nlm.nih.gov/gene/23244	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003539	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PEX19	http://www.ncbi.nlm.nih.gov/gene/5824	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003540	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PGAP1	http://www.ncbi.nlm.nih.gov/gene/80055	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003541	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PGP	http://www.ncbi.nlm.nih.gov/gene/283871	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003542	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PHC3	http://www.ncbi.nlm.nih.gov/gene/80012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003543	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PHF10	http://www.ncbi.nlm.nih.gov/gene/55274	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003544	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PHLDA3	http://www.ncbi.nlm.nih.gov/gene/23612	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003545	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PIKFYVE	http://www.ncbi.nlm.nih.gov/gene/200576	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003546	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PJA2	http://www.ncbi.nlm.nih.gov/gene/9867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003547	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PKN2	http://www.ncbi.nlm.nih.gov/gene/5586	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003548	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PLAG1	http://www.ncbi.nlm.nih.gov/gene/5324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003549	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PNN	http://www.ncbi.nlm.nih.gov/gene/5411	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003550	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	POLH	http://www.ncbi.nlm.nih.gov/gene/5429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003551	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003552	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PPA1	http://www.ncbi.nlm.nih.gov/gene/5464	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003553	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PPAPDC2	http://www.ncbi.nlm.nih.gov/gene/403313	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003554	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PPARGC1B	http://www.ncbi.nlm.nih.gov/gene/133522	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003555	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PPM1D	http://www.ncbi.nlm.nih.gov/gene/8493	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003556	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PPPDE1	http://www.ncbi.nlm.nih.gov/gene/51029	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003557	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PQLC3	http://www.ncbi.nlm.nih.gov/gene/130814	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003558	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PREPL	http://www.ncbi.nlm.nih.gov/gene/9581	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003559	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PRKAR1A	http://www.ncbi.nlm.nih.gov/gene/5573	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003560	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PRPF40A	http://www.ncbi.nlm.nih.gov/gene/55660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003561	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PTN	http://www.ncbi.nlm.nih.gov/gene/5764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003562	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PTPN2	http://www.ncbi.nlm.nih.gov/gene/5771	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003563	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PUM1	http://www.ncbi.nlm.nih.gov/gene/9698	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003564	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PURA	http://www.ncbi.nlm.nih.gov/gene/5813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003565	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	PURB	http://www.ncbi.nlm.nih.gov/gene/5814	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003566	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	QKI	http://www.ncbi.nlm.nih.gov/gene/9444	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003567	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RAB14	http://www.ncbi.nlm.nih.gov/gene/51552	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003568	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RAB22A	http://www.ncbi.nlm.nih.gov/gene/57403	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003569	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RAB7L1	http://www.ncbi.nlm.nih.gov/gene/8934	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003570	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RABIF	http://www.ncbi.nlm.nih.gov/gene/5877	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003571	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RAC1	http://www.ncbi.nlm.nih.gov/gene/5879	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003572	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RAD1	http://www.ncbi.nlm.nih.gov/gene/5810	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003573	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RAN	http://www.ncbi.nlm.nih.gov/gene/5901	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003574	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RBM12B	http://www.ncbi.nlm.nih.gov/gene/389677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003575	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RBM26	http://www.ncbi.nlm.nih.gov/gene/64062	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003576	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RBPSUH	http://www.ncbi.nlm.nih.gov/gene/3516	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003577	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RGS1	http://www.ncbi.nlm.nih.gov/gene/5996	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003578	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RIOK3	http://www.ncbi.nlm.nih.gov/gene/8780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003579	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RNF38	http://www.ncbi.nlm.nih.gov/gene/152006	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003580	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RNF44	http://www.ncbi.nlm.nih.gov/gene/22838	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003581	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RNMT	http://www.ncbi.nlm.nih.gov/gene/8731	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003582	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003583	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RPP14	http://www.ncbi.nlm.nih.gov/gene/11102	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003584	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RPRD1A	http://www.ncbi.nlm.nih.gov/gene/55197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003585	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RPRD2	http://www.ncbi.nlm.nih.gov/gene/23248	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003586	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RRM2B	http://www.ncbi.nlm.nih.gov/gene/50484	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003587	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RTF1	http://www.ncbi.nlm.nih.gov/gene/23168	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003588	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	RUNX2	http://www.ncbi.nlm.nih.gov/gene/860	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003589	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SAMD9	http://www.ncbi.nlm.nih.gov/gene/54809	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003590	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SCAMP1	http://www.ncbi.nlm.nih.gov/gene/9522	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003591	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SCP2	http://www.ncbi.nlm.nih.gov/gene/6342	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003592	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SCYL2	http://www.ncbi.nlm.nih.gov/gene/55681	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003593	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SECISBP2L	http://www.ncbi.nlm.nih.gov/gene/9728	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003594	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SENP6	http://www.ncbi.nlm.nih.gov/gene/26054	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003595	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SEPSECS	http://www.ncbi.nlm.nih.gov/gene/51091	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003596	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SERINC3	http://www.ncbi.nlm.nih.gov/gene/10955	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003597	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SETD7	http://www.ncbi.nlm.nih.gov/gene/80854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003598	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SH3PXD2A	http://www.ncbi.nlm.nih.gov/gene/9644	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003599	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SIKE1	http://www.ncbi.nlm.nih.gov/gene/80143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003600	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SIN3A	http://www.ncbi.nlm.nih.gov/gene/25942	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003601	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SLC11A2	http://www.ncbi.nlm.nih.gov/gene/4891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003602	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SLC16A1	http://www.ncbi.nlm.nih.gov/gene/6566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003603	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SLC23A2	http://www.ncbi.nlm.nih.gov/gene/9962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003604	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SLC25A12	http://www.ncbi.nlm.nih.gov/gene/8604	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003605	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SLC25A36	http://www.ncbi.nlm.nih.gov/gene/55186	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003606	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SLC25A44	http://www.ncbi.nlm.nih.gov/gene/9673	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003607	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SLC25A46	http://www.ncbi.nlm.nih.gov/gene/91137	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003608	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SLC30A9	http://www.ncbi.nlm.nih.gov/gene/10463	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003609	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SLC38A1	http://www.ncbi.nlm.nih.gov/gene/81539	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003610	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SLMO2	http://www.ncbi.nlm.nih.gov/gene/51012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003611	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SLTM	http://www.ncbi.nlm.nih.gov/gene/79811	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003612	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SNRNP200	http://www.ncbi.nlm.nih.gov/gene/652147	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003613	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SNX10	http://www.ncbi.nlm.nih.gov/gene/29887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003614	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SNX13	http://www.ncbi.nlm.nih.gov/gene/23161	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003615	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SNX18	http://www.ncbi.nlm.nih.gov/gene/112574	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003616	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SOCS4	http://www.ncbi.nlm.nih.gov/gene/122809	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003617	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SOS1	http://www.ncbi.nlm.nih.gov/gene/6654	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003618	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SPCS3	http://www.ncbi.nlm.nih.gov/gene/60559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003619	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SPG20	http://www.ncbi.nlm.nih.gov/gene/23111	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003620	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SRPK1	http://www.ncbi.nlm.nih.gov/gene/6732	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003621	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SSFA2	http://www.ncbi.nlm.nih.gov/gene/6744	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003622	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SSH2	http://www.ncbi.nlm.nih.gov/gene/85464	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003623	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	STIM2	http://www.ncbi.nlm.nih.gov/gene/57620	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003624	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	STK35	http://www.ncbi.nlm.nih.gov/gene/140901	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003625	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	STK38L	http://www.ncbi.nlm.nih.gov/gene/23012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003626	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	STYX	http://www.ncbi.nlm.nih.gov/gene/6815	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003627	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SYF2	http://www.ncbi.nlm.nih.gov/gene/25949	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003628	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	SYT1	http://www.ncbi.nlm.nih.gov/gene/6857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003629	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TACC1	http://www.ncbi.nlm.nih.gov/gene/6867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003630	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TADA1L	http://www.ncbi.nlm.nih.gov/gene/117143 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003631	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TAF2	http://www.ncbi.nlm.nih.gov/gene/6873	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003632	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TBRG1	http://www.ncbi.nlm.nih.gov/gene/84897	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003633	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TCF12	http://www.ncbi.nlm.nih.gov/gene/6938	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003634	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TEX261	http://www.ncbi.nlm.nih.gov/gene/113419	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003635	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TGFBR3	http://www.ncbi.nlm.nih.gov/gene/7049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003636	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TK2	http://www.ncbi.nlm.nih.gov/gene/7084	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003637	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TMEM117	http://www.ncbi.nlm.nih.gov/gene/84216	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003638	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TMTC3	http://www.ncbi.nlm.nih.gov/gene/160418	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003639	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TMTC4	http://www.ncbi.nlm.nih.gov/gene/84899	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003640	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TNKS1BP1	http://www.ncbi.nlm.nih.gov/gene/85456	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003641	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TNRC6B	http://www.ncbi.nlm.nih.gov/gene/23112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003642	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003643	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TPD52	http://www.ncbi.nlm.nih.gov/gene/7163	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003644	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TPM4	http://www.ncbi.nlm.nih.gov/gene/7171	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003645	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TRIM23	http://www.ncbi.nlm.nih.gov/gene/373	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003646	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TRIM65	http://www.ncbi.nlm.nih.gov/gene/201292	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003647	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TRIM68	http://www.ncbi.nlm.nih.gov/gene/55128	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003648	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TRUB1	http://www.ncbi.nlm.nih.gov/gene/142940	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003649	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	TUSC2	http://www.ncbi.nlm.nih.gov/gene/11334	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003650	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	UBE2A	http://www.ncbi.nlm.nih.gov/gene/7319	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003651	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	UBE2D3	http://www.ncbi.nlm.nih.gov/gene/100037280	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003652	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	UBE2N	http://www.ncbi.nlm.nih.gov/gene/7334	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003653	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	UBE2V2	http://www.ncbi.nlm.nih.gov/gene/7336	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003654	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	UBP1	http://www.ncbi.nlm.nih.gov/gene/7342	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003655	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	UGT8	http://www.ncbi.nlm.nih.gov/gene/7368	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003656	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	UHMK1	http://www.ncbi.nlm.nih.gov/gene/127933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003657	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	USP34	http://www.ncbi.nlm.nih.gov/gene/9736	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003658	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	USP37	http://www.ncbi.nlm.nih.gov/gene/57695	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003659	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	VHL	http://www.ncbi.nlm.nih.gov/gene/7428	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003660	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	VPS41	http://www.ncbi.nlm.nih.gov/gene/27072	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003661	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	WDR26	http://www.ncbi.nlm.nih.gov/gene/80232	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003662	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	WDR60	http://www.ncbi.nlm.nih.gov/gene/55112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003663	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	WNK1	http://www.ncbi.nlm.nih.gov/gene/65125	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003664	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	WWTR1	http://www.ncbi.nlm.nih.gov/gene/25937	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003665	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	XPO1	http://www.ncbi.nlm.nih.gov/gene/7514	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003666	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	YIPF4	http://www.ncbi.nlm.nih.gov/gene/84272	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003667	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	YPEL5	http://www.ncbi.nlm.nih.gov/gene/51646	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003668	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	YTHDF1	http://www.ncbi.nlm.nih.gov/gene/54915	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003669	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZBTB10	http://www.ncbi.nlm.nih.gov/gene/65986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003670	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZBTB11	http://www.ncbi.nlm.nih.gov/gene/27107	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003671	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZBTB38	http://www.ncbi.nlm.nih.gov/gene/253461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003672	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZBTB7B	http://www.ncbi.nlm.nih.gov/gene/51043	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003673	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZC3H6	http://www.ncbi.nlm.nih.gov/gene/376940	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003674	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZDHHC17	http://www.ncbi.nlm.nih.gov/gene/23390	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003675	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZFP91	http://www.ncbi.nlm.nih.gov/gene/386607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003676	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZKSCAN5	http://www.ncbi.nlm.nih.gov/gene/23660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003677	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZMPSTE24	http://www.ncbi.nlm.nih.gov/gene/10269	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003678	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZNF184	http://www.ncbi.nlm.nih.gov/gene/7738	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003679	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZNF254	http://www.ncbi.nlm.nih.gov/gene/9534	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003680	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZNF264	http://www.ncbi.nlm.nih.gov/gene/9422	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003681	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZNF354A	http://www.ncbi.nlm.nih.gov/gene/6940	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003682	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZNF516	http://www.ncbi.nlm.nih.gov/gene/9658	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003683	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZNF518A	http://www.ncbi.nlm.nih.gov/gene/9849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003684	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZNF624	http://www.ncbi.nlm.nih.gov/gene/57547	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003685	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZNF652	http://www.ncbi.nlm.nih.gov/gene/22834	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003686	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZNF714	http://www.ncbi.nlm.nih.gov/gene/148206	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003687	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZNF721	http://www.ncbi.nlm.nih.gov/gene/170960	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003688	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZNF827	http://www.ncbi.nlm.nih.gov/gene/152485	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003689	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZNF83	http://www.ncbi.nlm.nih.gov/gene/55769	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003690	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART14(ebv-mir-bart14)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003736	BC-1	-	Host	mRNA	ZNF91	http://www.ncbi.nlm.nih.gov/gene/7644	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003691	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	KPNA1	http://www.ncbi.nlm.nih.gov/gene/3836	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.
VHID00003692	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ABCB7	http://www.ncbi.nlm.nih.gov/gene/22	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003693	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ACSL1	http://www.ncbi.nlm.nih.gov/gene/2180	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003694	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ADAM10	http://www.ncbi.nlm.nih.gov/gene/102	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003695	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	AFF1	http://www.ncbi.nlm.nih.gov/gene/4299	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003696	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ALS2	http://www.ncbi.nlm.nih.gov/gene/57679	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003697	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ANKRD52	http://www.ncbi.nlm.nih.gov/gene/283373	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003698	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ANO3	http://www.ncbi.nlm.nih.gov/gene/63982	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003699	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	APLP2	http://www.ncbi.nlm.nih.gov/gene/334	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003700	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ARID3A	http://www.ncbi.nlm.nih.gov/gene/1820	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003701	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ATP6AP2	http://www.ncbi.nlm.nih.gov/gene/10159	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003702	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ATP6V1A	http://www.ncbi.nlm.nih.gov/gene/523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003703	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ATXN1L	http://www.ncbi.nlm.nih.gov/gene/342371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003704	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	B4GALT5	http://www.ncbi.nlm.nih.gov/gene/9334	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003705	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	B4GALT6	http://www.ncbi.nlm.nih.gov/gene/9331	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003706	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	BAZ2B	http://www.ncbi.nlm.nih.gov/gene/29994	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003707	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	BCL7B	http://www.ncbi.nlm.nih.gov/gene/9275	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003708	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	BRMS1L	http://www.ncbi.nlm.nih.gov/gene/84312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003709	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	BTBD3	http://www.ncbi.nlm.nih.gov/gene/22903	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003710	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	BTN3A1	http://www.ncbi.nlm.nih.gov/gene/11119	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003711	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	BTN3A2	http://www.ncbi.nlm.nih.gov/gene/11118	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003712	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	C10orf104	http://www.ncbi.nlm.nih.gov/gene/119504 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003713	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	C11orf57	http://www.ncbi.nlm.nih.gov/gene/55216	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003714	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	C20orf112	http://www.ncbi.nlm.nih.gov/gene/140688	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003715	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	C22orf40	http://www.ncbi.nlm.nih.gov/gene/150383	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003716	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	C3orf64	http://www.ncbi.nlm.nih.gov/gene/285203	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003717	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	C5orf30	http://www.ncbi.nlm.nih.gov/gene/90355	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003718	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	C6orf120	http://www.ncbi.nlm.nih.gov/gene/387263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003719	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	C6orf62	http://www.ncbi.nlm.nih.gov/gene/81688	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003720	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	C7orf60	http://www.ncbi.nlm.nih.gov/gene/154743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003721	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	C9orf6	http://www.ncbi.nlm.nih.gov/gene/54942	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003722	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CAND1	http://www.ncbi.nlm.nih.gov/gene/55832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003723	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CANX	http://www.ncbi.nlm.nih.gov/gene/821	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003724	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CARD16	http://www.ncbi.nlm.nih.gov/gene/114769	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003725	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CARHSP1	http://www.ncbi.nlm.nih.gov/gene/23589	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003726	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CBFA2T2	http://www.ncbi.nlm.nih.gov/gene/9139	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003727	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CCND2	http://www.ncbi.nlm.nih.gov/gene/894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003728	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CCT6A	http://www.ncbi.nlm.nih.gov/gene/908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003729	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CD164	http://www.ncbi.nlm.nih.gov/gene/8763	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003730	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CD46	http://www.ncbi.nlm.nih.gov/gene/4179	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003731	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CDC2L6	http://www.ncbi.nlm.nih.gov/gene/23097 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003732	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CDKN1B	http://www.ncbi.nlm.nih.gov/gene/1027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003733	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CHD2	http://www.ncbi.nlm.nih.gov/gene/1106	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003734	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CHUK	http://www.ncbi.nlm.nih.gov/gene/1147	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003735	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	COBLL1	http://www.ncbi.nlm.nih.gov/gene/22837	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003736	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CRCP	http://www.ncbi.nlm.nih.gov/gene/27297	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003737	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CREG1	http://www.ncbi.nlm.nih.gov/gene/8804	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003738	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CRIPT	http://www.ncbi.nlm.nih.gov/gene/9419	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003739	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CRTC3	http://www.ncbi.nlm.nih.gov/gene/64784	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003740	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CSGALNACT2	http://www.ncbi.nlm.nih.gov/gene/55454	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003741	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	CYTH3	http://www.ncbi.nlm.nih.gov/gene/9265	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003742	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	DDX31	http://www.ncbi.nlm.nih.gov/gene/64794	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003743	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	DDX3X	http://www.ncbi.nlm.nih.gov/gene/1654	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003744	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	DEPDC1	http://www.ncbi.nlm.nih.gov/gene/55635	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003745	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	DICER1	http://www.ncbi.nlm.nih.gov/gene/23405	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003746	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	DSTYK	http://www.ncbi.nlm.nih.gov/gene/25778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003747	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	DYRK1A	http://www.ncbi.nlm.nih.gov/gene/1859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003748	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	EIF2S3	http://www.ncbi.nlm.nih.gov/gene/1968	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003749	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ELL	http://www.ncbi.nlm.nih.gov/gene/8178	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003750	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	EPDR1	http://www.ncbi.nlm.nih.gov/gene/54749	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003751	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	EPS15	http://www.ncbi.nlm.nih.gov/gene/2060	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003752	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	EVI5	http://www.ncbi.nlm.nih.gov/gene/7813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003753	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	EYA4	http://www.ncbi.nlm.nih.gov/gene/2070	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003754	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	FAM107B	http://www.ncbi.nlm.nih.gov/gene/83641	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003755	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	FAM108B1	http://www.ncbi.nlm.nih.gov/gene/51104	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003756	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	FAM159B	http://www.ncbi.nlm.nih.gov/gene/285672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003757	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	FEM1C	http://www.ncbi.nlm.nih.gov/gene/56929	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003758	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	FOXN2	http://www.ncbi.nlm.nih.gov/gene/3344	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003759	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	FXR1	http://www.ncbi.nlm.nih.gov/gene/8087	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003760	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	FZD6	http://www.ncbi.nlm.nih.gov/gene/8323	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003761	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	GALK2	http://www.ncbi.nlm.nih.gov/gene/2585	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003762	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	GOLT1B	http://www.ncbi.nlm.nih.gov/gene/51026	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003763	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	GPATCH8	http://www.ncbi.nlm.nih.gov/gene/23131	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003764	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	GPD1L	http://www.ncbi.nlm.nih.gov/gene/23171	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003765	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	HAT1	http://www.ncbi.nlm.nih.gov/gene/8520	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003766	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	HDGF	http://www.ncbi.nlm.nih.gov/gene/3068	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003767	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	HOXB7	http://www.ncbi.nlm.nih.gov/gene/3217	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003768	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	HSPA13	http://www.ncbi.nlm.nih.gov/gene/6782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003769	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	HSPE1	http://www.ncbi.nlm.nih.gov/gene/3336	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003770	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	IFT74	http://www.ncbi.nlm.nih.gov/gene/80173	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003771	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	IKZF3	http://www.ncbi.nlm.nih.gov/gene/22806	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003772	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	INSIG1	http://www.ncbi.nlm.nih.gov/gene/3638	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003773	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	IPO7	http://www.ncbi.nlm.nih.gov/gene/10527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003774	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	IQCE	http://www.ncbi.nlm.nih.gov/gene/23288	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003775	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ITSN2	http://www.ncbi.nlm.nih.gov/gene/50618	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003776	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	JARID2	http://www.ncbi.nlm.nih.gov/gene/3720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003777	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	KIAA0317	http://www.ncbi.nlm.nih.gov/gene/9870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003778	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	KIAA1328	http://www.ncbi.nlm.nih.gov/gene/57536	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003779	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	KIF1B	http://www.ncbi.nlm.nih.gov/gene/23095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003780	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	KLHL23	http://www.ncbi.nlm.nih.gov/gene/151230	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003781	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	KPNA1	http://www.ncbi.nlm.nih.gov/gene/3836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003782	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	KRAS	http://www.ncbi.nlm.nih.gov/gene/3845	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003783	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	LANCL1	http://www.ncbi.nlm.nih.gov/gene/10314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003784	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	LIMD1	http://www.ncbi.nlm.nih.gov/gene/8994	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003785	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	LMBR1	http://www.ncbi.nlm.nih.gov/gene/64327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003786	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	LMNB1	http://www.ncbi.nlm.nih.gov/gene/4001	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003787	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	LYPLAL1	http://www.ncbi.nlm.nih.gov/gene/127018	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003788	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	LZTR1	http://www.ncbi.nlm.nih.gov/gene/8216	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003789	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	MAP3K7	http://www.ncbi.nlm.nih.gov/gene/6885	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003790	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	MAPK1IP1L	http://www.ncbi.nlm.nih.gov/gene/93487	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003791	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	MFN2	http://www.ncbi.nlm.nih.gov/gene/9927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003792	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	MFSD6	http://www.ncbi.nlm.nih.gov/gene/54842	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003793	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	MLL3	http://www.ncbi.nlm.nih.gov/gene/58508	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003794	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	MNT	http://www.ncbi.nlm.nih.gov/gene/4335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003795	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	MTCH2	http://www.ncbi.nlm.nih.gov/gene/23788	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003796	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	MTPN	http://www.ncbi.nlm.nih.gov/gene/767558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003797	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	MYNN	http://www.ncbi.nlm.nih.gov/gene/55892	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003798	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	NASP	http://www.ncbi.nlm.nih.gov/gene/4678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003799	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	NDUFA10	http://www.ncbi.nlm.nih.gov/gene/4705	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003800	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	NME1	http://www.ncbi.nlm.nih.gov/gene/4831	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003801	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	NPTN	http://www.ncbi.nlm.nih.gov/gene/27020	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003802	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	NR1D2	http://www.ncbi.nlm.nih.gov/gene/9975	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003803	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	NSFL1C	http://www.ncbi.nlm.nih.gov/gene/55968	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003804	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003805	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ORC2L	http://www.ncbi.nlm.nih.gov/gene/4999	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003806	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	OSBPL8	http://www.ncbi.nlm.nih.gov/gene/114882	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003807	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	PANK3	http://www.ncbi.nlm.nih.gov/gene/79646	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003808	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	PAPD5	http://www.ncbi.nlm.nih.gov/gene/64282	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003809	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	PCNX	http://www.ncbi.nlm.nih.gov/gene/22990	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003810	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	PDCD10	http://www.ncbi.nlm.nih.gov/gene/11235	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003811	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	PDCD7	http://www.ncbi.nlm.nih.gov/gene/10081	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003812	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	PFKM	http://www.ncbi.nlm.nih.gov/gene/5213	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003813	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	PLAG1	http://www.ncbi.nlm.nih.gov/gene/5324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003814	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	POLR2J	http://www.ncbi.nlm.nih.gov/gene/5439	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003815	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	PPAPDC2	http://www.ncbi.nlm.nih.gov/gene/403313	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003816	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	PPARD	http://www.ncbi.nlm.nih.gov/gene/5467	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003817	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	PPP1R12A	http://www.ncbi.nlm.nih.gov/gene/4659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003818	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	PRKAA1	http://www.ncbi.nlm.nih.gov/gene/5562	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003819	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	PRNP	http://www.ncbi.nlm.nih.gov/gene/5621	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003820	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	PRPF40A	http://www.ncbi.nlm.nih.gov/gene/55660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003821	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	PTCD2	http://www.ncbi.nlm.nih.gov/gene/79810	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003822	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	PTPLAD1	http://www.ncbi.nlm.nih.gov/gene/51495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003823	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	QARS	http://www.ncbi.nlm.nih.gov/gene/5859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003824	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	RC3H1	http://www.ncbi.nlm.nih.gov/gene/149041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003825	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	REEP5	http://www.ncbi.nlm.nih.gov/gene/7905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003826	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	RNF138	http://www.ncbi.nlm.nih.gov/gene/51444	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003827	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	RNF141	http://www.ncbi.nlm.nih.gov/gene/50862	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003828	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003829	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	RPS6KA3	http://www.ncbi.nlm.nih.gov/gene/6197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003830	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	RPS6KB1	http://www.ncbi.nlm.nih.gov/gene/6198	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003831	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	RSAD1	http://www.ncbi.nlm.nih.gov/gene/55316	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003832	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SBF2	http://www.ncbi.nlm.nih.gov/gene/81846	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003833	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SEC61A1	http://www.ncbi.nlm.nih.gov/gene/29927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003834	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SESTD1	http://www.ncbi.nlm.nih.gov/gene/91404	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003835	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SFPQ	http://www.ncbi.nlm.nih.gov/gene/6421	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003836	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SFXN1	http://www.ncbi.nlm.nih.gov/gene/94081	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003837	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SGK3	http://www.ncbi.nlm.nih.gov/gene/23678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003838	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SH3BP2	http://www.ncbi.nlm.nih.gov/gene/6452	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003839	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SIAH1	http://www.ncbi.nlm.nih.gov/gene/6477	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003840	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SIK2	http://www.ncbi.nlm.nih.gov/gene/23235	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003841	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SIRT3	http://www.ncbi.nlm.nih.gov/gene/23410	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003842	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SLC7A5	http://www.ncbi.nlm.nih.gov/gene/8140	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003843	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SMC6	http://www.ncbi.nlm.nih.gov/gene/79677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003844	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SMG7	http://www.ncbi.nlm.nih.gov/gene/9887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003845	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SNX11	http://www.ncbi.nlm.nih.gov/gene/29916	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003846	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SOCS6	http://www.ncbi.nlm.nih.gov/gene/9306	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003847	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SOX5	http://www.ncbi.nlm.nih.gov/gene/6660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003848	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SP1	http://www.ncbi.nlm.nih.gov/gene/6667	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003849	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SP3	http://www.ncbi.nlm.nih.gov/gene/6670	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003850	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SS18L1	http://www.ncbi.nlm.nih.gov/gene/26039	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003851	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	STK38L	http://www.ncbi.nlm.nih.gov/gene/23012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003852	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	STYX	http://www.ncbi.nlm.nih.gov/gene/6815	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003853	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	SVIP	http://www.ncbi.nlm.nih.gov/gene/258010	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003854	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	TBL1XR1	http://www.ncbi.nlm.nih.gov/gene/79718	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003855	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	TCF4	http://www.ncbi.nlm.nih.gov/gene/6925	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003856	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	TCP11L1	http://www.ncbi.nlm.nih.gov/gene/55346	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003857	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	TGFBRAP1	http://www.ncbi.nlm.nih.gov/gene/9392	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003858	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	TGOLN2	http://www.ncbi.nlm.nih.gov/gene/10618	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003859	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	THAP11	http://www.ncbi.nlm.nih.gov/gene/57215	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003860	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	TM7SF3	http://www.ncbi.nlm.nih.gov/gene/51768	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003861	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	TMEM214	http://www.ncbi.nlm.nih.gov/gene/54867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003862	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	TMTC3	http://www.ncbi.nlm.nih.gov/gene/160418	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003863	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	TNKS2	http://www.ncbi.nlm.nih.gov/gene/80351	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003864	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	TNRC6A	http://www.ncbi.nlm.nih.gov/gene/27327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003865	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	TNRC6C	http://www.ncbi.nlm.nih.gov/gene/57690	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003866	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	TP53RK	http://www.ncbi.nlm.nih.gov/gene/112858	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003867	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	TSC22D3	http://www.ncbi.nlm.nih.gov/gene/23151	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003868	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	TTC32	http://www.ncbi.nlm.nih.gov/gene/130502	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003869	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	UBE2D3	http://www.ncbi.nlm.nih.gov/gene/100037280	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003870	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	UBXN4	http://www.ncbi.nlm.nih.gov/gene/23190	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003871	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	UHRF1BP1	http://www.ncbi.nlm.nih.gov/gene/54887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003872	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	USPL1	http://www.ncbi.nlm.nih.gov/gene/10208	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003873	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	WDR37	http://www.ncbi.nlm.nih.gov/gene/22884	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003874	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	YWHAG	http://www.ncbi.nlm.nih.gov/gene/7532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003875	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ZBTB11	http://www.ncbi.nlm.nih.gov/gene/27107	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003876	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ZBTB38	http://www.ncbi.nlm.nih.gov/gene/253461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003877	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ZBTB6	http://www.ncbi.nlm.nih.gov/gene/10773	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003878	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ZFYVE26	http://www.ncbi.nlm.nih.gov/gene/23503	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003879	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ZNF136	http://www.ncbi.nlm.nih.gov/gene/7695	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003880	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ZNF264	http://www.ncbi.nlm.nih.gov/gene/9422	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003881	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ZNF367	http://www.ncbi.nlm.nih.gov/gene/195828	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003882	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ZNF460	http://www.ncbi.nlm.nih.gov/gene/10794	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003883	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ZNF498	http://www.ncbi.nlm.nih.gov/gene/221785	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003884	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ZNF776	http://www.ncbi.nlm.nih.gov/gene/284309	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003885	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ZNF804A	http://www.ncbi.nlm.nih.gov/gene/91752	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003886	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	BC-1	-	Host	mRNA	ZSCAN29	http://www.ncbi.nlm.nih.gov/gene/146050	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003887	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	AFF1	http://www.ncbi.nlm.nih.gov/gene/4299	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003888	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	AHCYL1	http://www.ncbi.nlm.nih.gov/gene/10768	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003889	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	ALS2	http://www.ncbi.nlm.nih.gov/gene/57679	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003890	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	AP3B1	http://www.ncbi.nlm.nih.gov/gene/8546	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003891	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	ARID3A	http://www.ncbi.nlm.nih.gov/gene/1820	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003892	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	ARL4C	http://www.ncbi.nlm.nih.gov/gene/10123	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003893	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	B2M	http://www.ncbi.nlm.nih.gov/gene/567	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003894	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	B4GALT6	http://www.ncbi.nlm.nih.gov/gene/9331	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003895	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	BAZ2B	http://www.ncbi.nlm.nih.gov/gene/29994	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003896	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	BBS7	http://www.ncbi.nlm.nih.gov/gene/55212	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003897	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	BTBD3	http://www.ncbi.nlm.nih.gov/gene/22903	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003898	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	C10orf104	http://www.ncbi.nlm.nih.gov/gene/119504 	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003899	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	C6orf120	http://www.ncbi.nlm.nih.gov/gene/387263	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003900	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	CANX	http://www.ncbi.nlm.nih.gov/gene/821	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003901	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	CBX5	http://www.ncbi.nlm.nih.gov/gene/23468	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003902	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	CCNYL1	http://www.ncbi.nlm.nih.gov/gene/151195	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003903	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	CDKN1B	http://www.ncbi.nlm.nih.gov/gene/1027	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003904	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	CHUK	http://www.ncbi.nlm.nih.gov/gene/1147	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003905	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	CRIPT	http://www.ncbi.nlm.nih.gov/gene/9419	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003906	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	DAP	http://www.ncbi.nlm.nih.gov/gene/1611	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003907	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	DDX31	http://www.ncbi.nlm.nih.gov/gene/64794	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003908	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	DDX3X	http://www.ncbi.nlm.nih.gov/gene/1654	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003909	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	DICER1	http://www.ncbi.nlm.nih.gov/gene/23405	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003910	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	DMD	http://www.ncbi.nlm.nih.gov/gene/1756	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003911	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	DSTYK	http://www.ncbi.nlm.nih.gov/gene/25778	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003912	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	EIF2S3	http://www.ncbi.nlm.nih.gov/gene/1968	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003913	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	ELL	http://www.ncbi.nlm.nih.gov/gene/8178	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003914	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	EPS15	http://www.ncbi.nlm.nih.gov/gene/2060	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003915	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	FADS1	http://www.ncbi.nlm.nih.gov/gene/3992	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003916	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	FXR1	http://www.ncbi.nlm.nih.gov/gene/8087	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003917	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	GALK2	http://www.ncbi.nlm.nih.gov/gene/2585	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003918	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	GDI1	http://www.ncbi.nlm.nih.gov/gene/2664	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003919	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	GPATCH8	http://www.ncbi.nlm.nih.gov/gene/23131	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003920	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	HECTD1	http://www.ncbi.nlm.nih.gov/gene/25831	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003921	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	HLA-DRA	http://www.ncbi.nlm.nih.gov/gene/3122	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003922	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	HSPH1	http://www.ncbi.nlm.nih.gov/gene/10808	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003923	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	IARS	http://www.ncbi.nlm.nih.gov/gene/3376	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003924	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	INSIG1	http://www.ncbi.nlm.nih.gov/gene/3638	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003925	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	ITSN2	http://www.ncbi.nlm.nih.gov/gene/50618	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003926	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	KIAA1370	http://www.ncbi.nlm.nih.gov/gene/56204	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003927	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	KIAA2018	http://www.ncbi.nlm.nih.gov/gene/205717	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003928	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	KRAS	http://www.ncbi.nlm.nih.gov/gene/3845	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003929	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	LMBR1	http://www.ncbi.nlm.nih.gov/gene/64327	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003930	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	LMNB1	http://www.ncbi.nlm.nih.gov/gene/4001	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003931	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	MGLL	http://www.ncbi.nlm.nih.gov/gene/11343	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003932	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	NAT12	http://www.ncbi.nlm.nih.gov/gene/122830 	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003933	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	NFKBID	http://www.ncbi.nlm.nih.gov/gene/84807	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003934	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	NPTN	http://www.ncbi.nlm.nih.gov/gene/27020	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003935	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003936	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	NUP155	http://www.ncbi.nlm.nih.gov/gene/9631	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003937	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	NUSAP1	http://www.ncbi.nlm.nih.gov/gene/51203	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003938	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	OXSR1	http://www.ncbi.nlm.nih.gov/gene/9943	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003939	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	PCNX	http://www.ncbi.nlm.nih.gov/gene/22990	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003940	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	PLAG1	http://www.ncbi.nlm.nih.gov/gene/5324	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003941	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	POLR3D	http://www.ncbi.nlm.nih.gov/gene/661	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003942	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	PPARD	http://www.ncbi.nlm.nih.gov/gene/5467	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003943	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	PRKAA1	http://www.ncbi.nlm.nih.gov/gene/5562	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003944	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	PTAR1	http://www.ncbi.nlm.nih.gov/gene/375743	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003945	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	RASGRP3	http://www.ncbi.nlm.nih.gov/gene/25780	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003946	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	RB1	http://www.ncbi.nlm.nih.gov/gene/5925	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003947	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	RBM38	http://www.ncbi.nlm.nih.gov/gene/55544	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003948	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	RPAP2	http://www.ncbi.nlm.nih.gov/gene/79871	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003949	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	RPS6KA3	http://www.ncbi.nlm.nih.gov/gene/6197	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003950	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	SAMD12	http://www.ncbi.nlm.nih.gov/gene/401474	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003951	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	SESTD1	http://www.ncbi.nlm.nih.gov/gene/91404	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003952	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	SFXN1	http://www.ncbi.nlm.nih.gov/gene/94081	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003953	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	SGK3	http://www.ncbi.nlm.nih.gov/gene/23678	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003954	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	SIAH1	http://www.ncbi.nlm.nih.gov/gene/6477	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003955	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	SIK1	http://www.ncbi.nlm.nih.gov/gene/150094	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003956	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	SLAMF1	http://www.ncbi.nlm.nih.gov/gene/6504	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003957	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	SLC7A5	http://www.ncbi.nlm.nih.gov/gene/8140	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003958	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	SNX11	http://www.ncbi.nlm.nih.gov/gene/29916	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003959	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	SORL1	http://www.ncbi.nlm.nih.gov/gene/6653	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003960	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	STARD13	http://www.ncbi.nlm.nih.gov/gene/90627	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003961	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	STK38L	http://www.ncbi.nlm.nih.gov/gene/23012	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003962	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	SYNCRIP	http://www.ncbi.nlm.nih.gov/gene/10492	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003963	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	TBL1XR1	http://www.ncbi.nlm.nih.gov/gene/79718	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003964	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	TCP11L1	http://www.ncbi.nlm.nih.gov/gene/55346	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003965	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	TGFBRAP1	http://www.ncbi.nlm.nih.gov/gene/9392	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003966	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	TMEM170A	http://www.ncbi.nlm.nih.gov/gene/124491	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003967	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	TMEM214	http://www.ncbi.nlm.nih.gov/gene/54867	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003968	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	TNKS2	http://www.ncbi.nlm.nih.gov/gene/80351	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003969	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	TNRC6A	http://www.ncbi.nlm.nih.gov/gene/27327	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003970	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	TRIM21	http://www.ncbi.nlm.nih.gov/gene/6737	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003971	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	TSC22D3	http://www.ncbi.nlm.nih.gov/gene/23151	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003972	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	TTLL11	http://www.ncbi.nlm.nih.gov/gene/158135	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00003973	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	UBE2D3	http://www.ncbi.nlm.nih.gov/gene/100037280	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003974	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	ZBTB11	http://www.ncbi.nlm.nih.gov/gene/27107	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003975	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	ZBTB6	http://www.ncbi.nlm.nih.gov/gene/10773	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003976	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	ZFYVE26	http://www.ncbi.nlm.nih.gov/gene/23503	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003977	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(ebv-mir-bart15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	Lymphoblastoid cell lines	-	Host	mRNA	ZNF460	http://www.ncbi.nlm.nih.gov/gene/10794	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00003978	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(miR-BART15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	AGS gastric carcinoma cell	-	Host	Protein	BIRC6(BRUCE)	http://www.ncbi.nlm.nih.gov/gene/57448	Downregulation	Quantitative Reverse Transcription PCR (QRT-PCR),Northern Blot,AGO2 Co-Immunoprecipitation.	23979421	It was indicated in transient transfection assay that miR-BART15 could suppress cell growth and induced early apoptosis in AGS gastric carcinoma cell in part through targeting the BRUCE gene.
VHID00003979	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15(miR-BART15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	PMA-treated Thp-1 cells	-	Host	Protein	NLRP3	http://www.ncbi.nlm.nih.gov/gene/114548	Downregulation	Quantitative PCR,Western blot,Luciferase experiments,Cytokine measurement.	22984081	We formally tested the ability of the viral miRNA to decrease the expression of the?NLRP3?3'-UTR luciferase construct and observed that only EBV miR-BART15 targeted this construct.Transfection of EBV miR-BART15 into PMA-treated Thp-1 cells reduced endogenous NLRP3 protein levels.
VHID00003980	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(BART-16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	-	-	Host	Protein	TOMM22	http://www.ncbi.nlm.nih.gov/gene/56993	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.
VHID00003981	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ALG10B	http://www.ncbi.nlm.nih.gov/gene/144245	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003982	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ALS2CR8	http://www.ncbi.nlm.nih.gov/gene/79800	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003983	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ANKRD17	http://www.ncbi.nlm.nih.gov/gene/26057	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003984	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ANLN	http://www.ncbi.nlm.nih.gov/gene/54443	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003985	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ATE1	http://www.ncbi.nlm.nih.gov/gene/11101	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003986	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ATP2B4	http://www.ncbi.nlm.nih.gov/gene/493	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003987	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ATP2C1	http://www.ncbi.nlm.nih.gov/gene/27032	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003988	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ATXN1L	http://www.ncbi.nlm.nih.gov/gene/342371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003989	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	B4GALT3	http://www.ncbi.nlm.nih.gov/gene/8703	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003990	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	BAZ2A	http://www.ncbi.nlm.nih.gov/gene/11176	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003991	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	BRMS1L	http://www.ncbi.nlm.nih.gov/gene/84312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003992	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	BXDC2	http://www.ncbi.nlm.nih.gov/gene/55299 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003993	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	C10orf140	http://www.ncbi.nlm.nih.gov/gene/387640	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003994	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	C12orf5	http://www.ncbi.nlm.nih.gov/gene/57103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003995	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	C14orf1	http://www.ncbi.nlm.nih.gov/gene/11161	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003996	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	C20orf177	http://www.ncbi.nlm.nih.gov/gene/63939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003997	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	C7orf60	http://www.ncbi.nlm.nih.gov/gene/154743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003998	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	CC2D1B	http://www.ncbi.nlm.nih.gov/gene/200014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00003999	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	CCND2	http://www.ncbi.nlm.nih.gov/gene/894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004000	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	CDR2	http://www.ncbi.nlm.nih.gov/gene/1039	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004001	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	CEP55	http://www.ncbi.nlm.nih.gov/gene/55165	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004002	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	CHRM3	http://www.ncbi.nlm.nih.gov/gene/1131	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004003	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	COG5	http://www.ncbi.nlm.nih.gov/gene/10466	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004004	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	COMMD2	http://www.ncbi.nlm.nih.gov/gene/51122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004005	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	CREBBP	http://www.ncbi.nlm.nih.gov/gene/1387	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004006	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	CSNK2A1	http://www.ncbi.nlm.nih.gov/gene/283106	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004007	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	DNAJB11	http://www.ncbi.nlm.nih.gov/gene/51726	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004008	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	DSTYK	http://www.ncbi.nlm.nih.gov/gene/25778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004009	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	EBPL	http://www.ncbi.nlm.nih.gov/gene/84650	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004010	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	EIF2AK2	http://www.ncbi.nlm.nih.gov/gene/5610	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004011	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ENOPH1	http://www.ncbi.nlm.nih.gov/gene/58478	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004012	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	F2R	http://www.ncbi.nlm.nih.gov/gene/2149	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004013	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	FBXO22	http://www.ncbi.nlm.nih.gov/gene/26263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004014	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	FKBP14	http://www.ncbi.nlm.nih.gov/gene/55033	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004015	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	FLAD1	http://www.ncbi.nlm.nih.gov/gene/80308	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004016	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	FLVCR1	http://www.ncbi.nlm.nih.gov/gene/28982	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004017	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	FRMD4B	http://www.ncbi.nlm.nih.gov/gene/23150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004018	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	G3BP2	http://www.ncbi.nlm.nih.gov/gene/9908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004019	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	GCET2	http://www.ncbi.nlm.nih.gov/gene/257144	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004020	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	GLCCI1	http://www.ncbi.nlm.nih.gov/gene/113263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004021	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	HMGCS1	http://www.ncbi.nlm.nih.gov/gene/3157	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004022	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	HP1BP3	http://www.ncbi.nlm.nih.gov/gene/50809	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004023	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	INPP4A	http://www.ncbi.nlm.nih.gov/gene/3631	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004024	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	KBTBD2	http://www.ncbi.nlm.nih.gov/gene/25948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004025	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	KIAA0090	http://www.ncbi.nlm.nih.gov/gene/23065	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004026	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	KIAA1432	http://www.ncbi.nlm.nih.gov/gene/57589	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004027	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	KIAA1826	http://www.ncbi.nlm.nih.gov/gene/84437	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004028	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	KIF21A	http://www.ncbi.nlm.nih.gov/gene/55605	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004029	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	KLF12	http://www.ncbi.nlm.nih.gov/gene/11278	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004030	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	KLF3	http://www.ncbi.nlm.nih.gov/gene/51274	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004031	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	KLHL8	http://www.ncbi.nlm.nih.gov/gene/57563	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004032	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	LACTB2	http://www.ncbi.nlm.nih.gov/gene/51110	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004033	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	LANCL1	http://www.ncbi.nlm.nih.gov/gene/10314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004034	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	LIN54	http://www.ncbi.nlm.nih.gov/gene/132660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004035	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	MFSD9	http://www.ncbi.nlm.nih.gov/gene/84804	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004036	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	MKRN2	http://www.ncbi.nlm.nih.gov/gene/23609	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004037	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	MOBKL1B	http://www.ncbi.nlm.nih.gov/gene/55233	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004038	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	MRP63	http://www.ncbi.nlm.nih.gov/gene/78988	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004039	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	MYPOP	http://www.ncbi.nlm.nih.gov/gene/339344	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004040	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	NAPG	http://www.ncbi.nlm.nih.gov/gene/8774	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004041	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	NCOA2	http://www.ncbi.nlm.nih.gov/gene/10499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004042	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	NCOR1	http://www.ncbi.nlm.nih.gov/gene/9611	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004043	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	NHLRC2	http://www.ncbi.nlm.nih.gov/gene/374354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004044	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	NME6	http://www.ncbi.nlm.nih.gov/gene/10201	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004045	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	NR2C1	http://www.ncbi.nlm.nih.gov/gene/7181	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004046	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	NRAS	http://www.ncbi.nlm.nih.gov/gene/4893	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004047	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	NUDT15	http://www.ncbi.nlm.nih.gov/gene/55270	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004048	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	OXCT1	http://www.ncbi.nlm.nih.gov/gene/5019	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004049	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	PANK3	http://www.ncbi.nlm.nih.gov/gene/79646	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004050	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	PAPOLA	http://www.ncbi.nlm.nih.gov/gene/10914	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004051	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	PCDH10	http://www.ncbi.nlm.nih.gov/gene/57575	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004052	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	PDCD4	http://www.ncbi.nlm.nih.gov/gene/27250	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004053	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	PHLPP2	http://www.ncbi.nlm.nih.gov/gene/23035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004054	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	PJA2	http://www.ncbi.nlm.nih.gov/gene/9867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004055	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	PLDN	http://www.ncbi.nlm.nih.gov/gene/26258	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004056	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	PMS1	http://www.ncbi.nlm.nih.gov/gene/5378	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004057	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	POGZ	http://www.ncbi.nlm.nih.gov/gene/23126	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004058	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	PPP3CA	http://www.ncbi.nlm.nih.gov/gene/5530	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004059	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	PRDM4	http://www.ncbi.nlm.nih.gov/gene/11108	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004060	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	PREPL	http://www.ncbi.nlm.nih.gov/gene/9581	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004061	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	PRKAR1A	http://www.ncbi.nlm.nih.gov/gene/5573	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004062	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	PTP4A2	http://www.ncbi.nlm.nih.gov/gene/8073	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004063	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	PUS7L	http://www.ncbi.nlm.nih.gov/gene/83448	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004064	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	RAB11FIP1	http://www.ncbi.nlm.nih.gov/gene/80223	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004065	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	RASSF8	http://www.ncbi.nlm.nih.gov/gene/11228	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004066	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	RBPSUH	http://www.ncbi.nlm.nih.gov/gene/3516	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004067	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	REEP3	http://www.ncbi.nlm.nih.gov/gene/221035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004068	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	RFWD2	http://www.ncbi.nlm.nih.gov/gene/64326	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004069	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	RHPN2	http://www.ncbi.nlm.nih.gov/gene/85415	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004070	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	RIMBP2	http://www.ncbi.nlm.nih.gov/gene/23504	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004071	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	RIT1	http://www.ncbi.nlm.nih.gov/gene/6016	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004072	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	RSBN1	http://www.ncbi.nlm.nih.gov/gene/54665	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004073	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	RTN4	http://www.ncbi.nlm.nih.gov/gene/57142	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004074	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	RUNX2	http://www.ncbi.nlm.nih.gov/gene/860	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004075	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	SCARB2	http://www.ncbi.nlm.nih.gov/gene/950	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004076	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	SEC62	http://www.ncbi.nlm.nih.gov/gene/7095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004077	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	SETD5	http://www.ncbi.nlm.nih.gov/gene/55209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004078	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	SFRS18	http://www.ncbi.nlm.nih.gov/gene/25957	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004079	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	SLC25A36	http://www.ncbi.nlm.nih.gov/gene/55186	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004080	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	SMG7	http://www.ncbi.nlm.nih.gov/gene/9887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004081	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	SNX16	http://www.ncbi.nlm.nih.gov/gene/64089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004082	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	SUB1	http://www.ncbi.nlm.nih.gov/gene/10923	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004083	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	TBC1D20	http://www.ncbi.nlm.nih.gov/gene/128637	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004084	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	TMEM168	http://www.ncbi.nlm.nih.gov/gene/64418	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004085	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	TOMM22	http://www.ncbi.nlm.nih.gov/gene/56993	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004086	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	TP53BP2	http://www.ncbi.nlm.nih.gov/gene/7159	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004087	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004088	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	TWSG1	http://www.ncbi.nlm.nih.gov/gene/57045	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004089	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	UHMK1	http://www.ncbi.nlm.nih.gov/gene/127933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004090	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	USP14	http://www.ncbi.nlm.nih.gov/gene/9097	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004091	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	UTP23	http://www.ncbi.nlm.nih.gov/gene/84294	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004092	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	WASL	http://www.ncbi.nlm.nih.gov/gene/8976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004093	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	WDR26	http://www.ncbi.nlm.nih.gov/gene/80232	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004094	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	WWTR1	http://www.ncbi.nlm.nih.gov/gene/25937	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004095	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	XPO4	http://www.ncbi.nlm.nih.gov/gene/64328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004096	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ZBTB39	http://www.ncbi.nlm.nih.gov/gene/9880	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004097	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ZBTB4	http://www.ncbi.nlm.nih.gov/gene/57659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004098	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ZFAND1	http://www.ncbi.nlm.nih.gov/gene/79752	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004099	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ZMAT3	http://www.ncbi.nlm.nih.gov/gene/64393	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004100	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ZNF146	http://www.ncbi.nlm.nih.gov/gene/7705	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004101	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ZNF451	http://www.ncbi.nlm.nih.gov/gene/26036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004102	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ZNF512B	http://www.ncbi.nlm.nih.gov/gene/57473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004103	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ZNF618	http://www.ncbi.nlm.nih.gov/gene/114991	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004104	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ZNF626	http://www.ncbi.nlm.nih.gov/gene/199777	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004105	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(ebv-mir-bart16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	BC-1	-	Host	mRNA	ZNF776	http://www.ncbi.nlm.nih.gov/gene/284309	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004106	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(miR-BART16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	-	-	Host	Protein	TOMM22	http://www.ncbi.nlm.nih.gov/gene/56993	-	Report arrays.	22100165	We detected the reported cluster, containing a seed match to miRBART16. We also detected an additional cluster with a seed match to miR-BART6-3p. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00004107	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(miR-BART16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	293T cells	-	Host	Protein	NFKB1	http://www.ncbi.nlm.nih.gov/gene/4790	Downregulation	luciferase reporter assays, photoactivatable cross-linking and immunoprecipitation(PAR-CLIP), and deep sequencing and qRT-PCR.	24257599	These data demonstrate that miR-rL1-8 can functionally substitute for miRBART5 and that miR-BART5 and miR-BART16 negatively regulate NFKB signaling by directly targeting the LMP1 3'UTR.
VHID00004108	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART2(BART2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001068	-	-	Host	Protein	OTUD1	http://www.ncbi.nlm.nih.gov/gene/220213	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.
VHID00004109	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART2(BART2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001068	-	-	Host	Protein	PELI1	http://www.ncbi.nlm.nih.gov/gene/57162	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.
VHID00004110	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART2-5p(miR-BART2-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001000	-	-	Host	mRNA	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	Downregulation	Quantitative Real-Time PCR, Luciferase Assay, Western Blot.	19380116	Thus, we identified the specific binding sites of miR-K12-7 and of miR-BART2-5p in the 3'UTR of MICB and can now consider the strategy of MICB miRNA targeting as a common trait of human herpesviruses.
VHID00004111	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ABHD10	http://www.ncbi.nlm.nih.gov/gene/55347	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004112	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ACOX1	http://www.ncbi.nlm.nih.gov/gene/51	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004113	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ACSL3	http://www.ncbi.nlm.nih.gov/gene/2181	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004114	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ACSL4	http://www.ncbi.nlm.nih.gov/gene/2182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004115	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	AKAP13	http://www.ncbi.nlm.nih.gov/gene/11214	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004116	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	AKIRIN1	http://www.ncbi.nlm.nih.gov/gene/79647	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004117	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	AMBRA1	http://www.ncbi.nlm.nih.gov/gene/55626	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004118	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	AMFR	http://www.ncbi.nlm.nih.gov/gene/267	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004119	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ANGEL2	http://www.ncbi.nlm.nih.gov/gene/90806	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004120	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ANKRD13C	http://www.ncbi.nlm.nih.gov/gene/81573	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004121	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ANKRD40	http://www.ncbi.nlm.nih.gov/gene/91369	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004122	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	AP1S3	http://www.ncbi.nlm.nih.gov/gene/130340	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004123	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	API5L1	http://www.ncbi.nlm.nih.gov/gene/8539	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004124	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	APLP2	http://www.ncbi.nlm.nih.gov/gene/334	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004125	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	APPL2	http://www.ncbi.nlm.nih.gov/gene/55198	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004126	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ARHGAP11A	http://www.ncbi.nlm.nih.gov/gene/89839	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004127	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ARHGAP12	http://www.ncbi.nlm.nih.gov/gene/94134	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004128	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ARID4B	http://www.ncbi.nlm.nih.gov/gene/51742	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004129	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ARL5A	http://www.ncbi.nlm.nih.gov/gene/26225	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004130	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ATG2B	http://www.ncbi.nlm.nih.gov/gene/55102	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004131	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ATIC	http://www.ncbi.nlm.nih.gov/gene/471	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004132	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ATL2	http://www.ncbi.nlm.nih.gov/gene/64225	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004133	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ATP11A	http://www.ncbi.nlm.nih.gov/gene/23250	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004134	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ATP11C	http://www.ncbi.nlm.nih.gov/gene/286410	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004135	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	B3GNT1	http://www.ncbi.nlm.nih.gov/gene/10678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004136	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	B4GALT1	http://www.ncbi.nlm.nih.gov/gene/2683	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004137	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	BAX	http://www.ncbi.nlm.nih.gov/gene/581	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004138	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	BBS10	http://www.ncbi.nlm.nih.gov/gene/79738	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004139	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	BCL2L11	http://www.ncbi.nlm.nih.gov/gene/10018	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004140	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	BCL3	http://www.ncbi.nlm.nih.gov/gene/602	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004141	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	BHLHB9	http://www.ncbi.nlm.nih.gov/gene/80823	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004142	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	BNC2	http://www.ncbi.nlm.nih.gov/gene/54796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004143	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	BRWD1	http://www.ncbi.nlm.nih.gov/gene/54014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004144	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	BSDC1	http://www.ncbi.nlm.nih.gov/gene/55108	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004145	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	BTBD7	http://www.ncbi.nlm.nih.gov/gene/55727	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004146	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	C10orf18	http://www.ncbi.nlm.nih.gov/gene/54906	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004147	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	C11orf10	http://www.ncbi.nlm.nih.gov/gene/746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004148	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	C11orf79	http://www.ncbi.nlm.nih.gov/gene/54949 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004149	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	C12orf28	http://www.ncbi.nlm.nih.gov/gene/196446	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004150	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	C14orf135	http://www.ncbi.nlm.nih.gov/gene/64430	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004151	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	C14orf147	http://www.ncbi.nlm.nih.gov/gene/171546	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004152	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	C1orf52	http://www.ncbi.nlm.nih.gov/gene/148423	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004153	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	C1orf55	http://www.ncbi.nlm.nih.gov/gene/163859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004154	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	C1orf9	http://www.ncbi.nlm.nih.gov/gene/51430	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004155	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	C20orf112	http://www.ncbi.nlm.nih.gov/gene/140688	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004156	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	C22orf40	http://www.ncbi.nlm.nih.gov/gene/150383	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004157	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	C4orf29	http://www.ncbi.nlm.nih.gov/gene/80167	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004158	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	C4orf30	http://www.ncbi.nlm.nih.gov/gene/54876 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004159	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	C5orf37	http://www.ncbi.nlm.nih.gov/gene/134359 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004160	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	C5orf41	http://www.ncbi.nlm.nih.gov/gene/153222	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004161	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CAB39	http://www.ncbi.nlm.nih.gov/gene/51719	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004162	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CACYBP	http://www.ncbi.nlm.nih.gov/gene/644877	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004163	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CAMSAP1L1	http://www.ncbi.nlm.nih.gov/gene/23271	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004164	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CANT1	http://www.ncbi.nlm.nih.gov/gene/124583	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004165	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CANX	http://www.ncbi.nlm.nih.gov/gene/821	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004166	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CAPRIN1	http://www.ncbi.nlm.nih.gov/gene/4076	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004167	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CAPZA1	http://www.ncbi.nlm.nih.gov/gene/829	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004168	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CASC5	http://www.ncbi.nlm.nih.gov/gene/57082	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004169	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CASD1	http://www.ncbi.nlm.nih.gov/gene/64921	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004170	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004171	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CASP7	http://www.ncbi.nlm.nih.gov/gene/840	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004172	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CBX5	http://www.ncbi.nlm.nih.gov/gene/23468	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004173	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CCDC14	http://www.ncbi.nlm.nih.gov/gene/64770	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004174	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CCNG1	http://www.ncbi.nlm.nih.gov/gene/900	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004175	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CCNI	http://www.ncbi.nlm.nih.gov/gene/10983	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004176	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004177	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CD164	http://www.ncbi.nlm.nih.gov/gene/8763	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004178	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CD86	http://www.ncbi.nlm.nih.gov/gene/942	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004179	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CD97	http://www.ncbi.nlm.nih.gov/gene/976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004180	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CDC25C	http://www.ncbi.nlm.nih.gov/gene/995	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004181	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CDC37L1	http://www.ncbi.nlm.nih.gov/gene/55664	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004182	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CDC42	http://www.ncbi.nlm.nih.gov/gene/998	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004183	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CDK6	http://www.ncbi.nlm.nih.gov/gene/1021	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004184	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CDV3	http://www.ncbi.nlm.nih.gov/gene/55573	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004185	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CEP120	http://www.ncbi.nlm.nih.gov/gene/153241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004186	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CEP350	http://www.ncbi.nlm.nih.gov/gene/9857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004187	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CFL2	http://www.ncbi.nlm.nih.gov/gene/1073	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004188	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CHD5	http://www.ncbi.nlm.nih.gov/gene/26038	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004189	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CHD7	http://www.ncbi.nlm.nih.gov/gene/55636	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004190	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CLDN12	http://www.ncbi.nlm.nih.gov/gene/9069	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004191	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	COL4A3BP	http://www.ncbi.nlm.nih.gov/gene/10087	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004192	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	COMMD2	http://www.ncbi.nlm.nih.gov/gene/51122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004193	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	COPS8	http://www.ncbi.nlm.nih.gov/gene/10920	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004194	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CPEB2	http://www.ncbi.nlm.nih.gov/gene/132864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004195	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CPEB3	http://www.ncbi.nlm.nih.gov/gene/22849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004196	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CPEB4	http://www.ncbi.nlm.nih.gov/gene/80315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004197	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CPNE3	http://www.ncbi.nlm.nih.gov/gene/8895	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004198	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CREB1	http://www.ncbi.nlm.nih.gov/gene/1385	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004199	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CRK	http://www.ncbi.nlm.nih.gov/gene/1398	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004200	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CSDE1	http://www.ncbi.nlm.nih.gov/gene/7812	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004201	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	CUGBP1	http://www.ncbi.nlm.nih.gov/gene/10658 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004202	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	DCAF5	http://www.ncbi.nlm.nih.gov/gene/8816	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004203	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	DCAF7	http://www.ncbi.nlm.nih.gov/gene/10238	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004204	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	DCTN6	http://www.ncbi.nlm.nih.gov/gene/10671	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004205	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	DDHD1	http://www.ncbi.nlm.nih.gov/gene/80821	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004206	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	DDHD2	http://www.ncbi.nlm.nih.gov/gene/23259	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004207	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	DDI2	http://www.ncbi.nlm.nih.gov/gene/84301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004208	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	DDX19A	http://www.ncbi.nlm.nih.gov/gene/55308	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004209	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	DDX3Y	http://www.ncbi.nlm.nih.gov/gene/8653	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004210	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	DHX40	http://www.ncbi.nlm.nih.gov/gene/100134387	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004211	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	DIP2C	http://www.ncbi.nlm.nih.gov/gene/22982	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004212	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	DLG5	http://www.ncbi.nlm.nih.gov/gene/9231	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004213	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	DNAJB9	http://www.ncbi.nlm.nih.gov/gene/4189	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004214	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	DNM1L	http://www.ncbi.nlm.nih.gov/gene/10059	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004215	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	DRAM1	http://www.ncbi.nlm.nih.gov/gene/55332	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004216	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	E2F3	http://www.ncbi.nlm.nih.gov/gene/1871	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004217	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	E2F7	http://www.ncbi.nlm.nih.gov/gene/144455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004218	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	EGR1	http://www.ncbi.nlm.nih.gov/gene/1958	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004219	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ELK4	http://www.ncbi.nlm.nih.gov/gene/2005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004220	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ERLIN2	http://www.ncbi.nlm.nih.gov/gene/11160	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004221	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	EXOC8	http://www.ncbi.nlm.nih.gov/gene/149371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004222	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	FAM126A	http://www.ncbi.nlm.nih.gov/gene/84668	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004223	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	FAM160B1	http://www.ncbi.nlm.nih.gov/gene/57700	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004224	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	FAM169A	http://www.ncbi.nlm.nih.gov/gene/26049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004225	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	FAM49B	http://www.ncbi.nlm.nih.gov/gene/51571	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004226	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	FAU	http://www.ncbi.nlm.nih.gov/gene/2197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004227	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	FBN1	http://www.ncbi.nlm.nih.gov/gene/2200	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004228	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	FBXO30	http://www.ncbi.nlm.nih.gov/gene/84085	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004229	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	FBXO45	http://www.ncbi.nlm.nih.gov/gene/200933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004230	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	FNDC3A	http://www.ncbi.nlm.nih.gov/gene/22862	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004231	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	FNDC3B	http://www.ncbi.nlm.nih.gov/gene/64778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004232	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	FZD6	http://www.ncbi.nlm.nih.gov/gene/8323	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004233	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	G3BP1	http://www.ncbi.nlm.nih.gov/gene/10146	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004234	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	G3BP2	http://www.ncbi.nlm.nih.gov/gene/9908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004235	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	GABPB1	http://www.ncbi.nlm.nih.gov/gene/2553	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004236	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	GADD45A	http://www.ncbi.nlm.nih.gov/gene/1647	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004237	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	GALNT7	http://www.ncbi.nlm.nih.gov/gene/51809	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004238	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	GAN	http://www.ncbi.nlm.nih.gov/gene/8139	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004239	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	GEMIN5	http://www.ncbi.nlm.nih.gov/gene/25929	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004240	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	GLT8D3	http://www.ncbi.nlm.nih.gov/gene/283464 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004241	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	GMPS	http://www.ncbi.nlm.nih.gov/gene/8833	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004242	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	GRPEL2	http://www.ncbi.nlm.nih.gov/gene/134266	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004243	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	H2AFV	http://www.ncbi.nlm.nih.gov/gene/94239	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004244	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	H2AFZ	http://www.ncbi.nlm.nih.gov/gene/3015	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004245	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	HADHB	http://www.ncbi.nlm.nih.gov/gene/3032	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004246	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	HCFC2	http://www.ncbi.nlm.nih.gov/gene/29915	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004247	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	HDGF	http://www.ncbi.nlm.nih.gov/gene/3068	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004248	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	HIP1	http://www.ncbi.nlm.nih.gov/gene/3092	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004249	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	HIPK1	http://www.ncbi.nlm.nih.gov/gene/204851	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004250	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	HMGB2	http://www.ncbi.nlm.nih.gov/gene/3148	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004251	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	HMGN3	http://www.ncbi.nlm.nih.gov/gene/9324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004252	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	HNRNPU	http://www.ncbi.nlm.nih.gov/gene/3192	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004253	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	HSD17B10	http://www.ncbi.nlm.nih.gov/gene/3028	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004254	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	HSPA1B	http://www.ncbi.nlm.nih.gov/gene/3303	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004255	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ICK	http://www.ncbi.nlm.nih.gov/gene/22858	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004256	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	IGF1R	http://www.ncbi.nlm.nih.gov/gene/3480	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004257	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	INO80D	http://www.ncbi.nlm.nih.gov/gene/54891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004258	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	INTS2	http://www.ncbi.nlm.nih.gov/gene/57508	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004259	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	IQGAP2	http://www.ncbi.nlm.nih.gov/gene/10788	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004260	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	IREB2	http://www.ncbi.nlm.nih.gov/gene/3658	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004261	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	IRF4	http://www.ncbi.nlm.nih.gov/gene/3662	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004262	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	JMJD1C	http://www.ncbi.nlm.nih.gov/gene/221037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004263	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	JUND	http://www.ncbi.nlm.nih.gov/gene/3727	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004264	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	KCTD20	http://www.ncbi.nlm.nih.gov/gene/222658	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004265	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	KIAA0776	http://www.ncbi.nlm.nih.gov/gene/23376	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004266	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	KIAA0892	http://www.ncbi.nlm.nih.gov/gene/23383	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004267	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	KIAA0895	http://www.ncbi.nlm.nih.gov/gene/23366	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004268	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	KIF5B	http://www.ncbi.nlm.nih.gov/gene/3799	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004269	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	KLF13	http://www.ncbi.nlm.nih.gov/gene/51621	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004270	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	KLF9	http://www.ncbi.nlm.nih.gov/gene/687	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004271	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	KLHDC5	http://www.ncbi.nlm.nih.gov/gene/57542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004272	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	KPNA1	http://www.ncbi.nlm.nih.gov/gene/3836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004273	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	KPNA5	http://www.ncbi.nlm.nih.gov/gene/3841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004274	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	LAMC1	http://www.ncbi.nlm.nih.gov/gene/3915	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004275	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	LARP4	http://www.ncbi.nlm.nih.gov/gene/113251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004276	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	LCOR	http://www.ncbi.nlm.nih.gov/gene/84458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004277	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	LETM1	http://www.ncbi.nlm.nih.gov/gene/3954	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004278	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	LIMA1	http://www.ncbi.nlm.nih.gov/gene/51474	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004279	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	LMAN1	http://www.ncbi.nlm.nih.gov/gene/3998	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004280	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	LRRC58	http://www.ncbi.nlm.nih.gov/gene/116064	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004281	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	LRRC8D	http://www.ncbi.nlm.nih.gov/gene/55144	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004282	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MAGEF1	http://www.ncbi.nlm.nih.gov/gene/64110	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004283	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MAP3K13	http://www.ncbi.nlm.nih.gov/gene/9175	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004284	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MAP3K2	http://www.ncbi.nlm.nih.gov/gene/10746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004285	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MAP3K5	http://www.ncbi.nlm.nih.gov/gene/4217	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004286	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MAP3K7IP2	http://www.ncbi.nlm.nih.gov/gene/23118 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004287	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MAP4K3	http://www.ncbi.nlm.nih.gov/gene/8491	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004288	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MAPK1	http://www.ncbi.nlm.nih.gov/gene/5594	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004289	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MAPK1IP1L	http://www.ncbi.nlm.nih.gov/gene/93487	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004290	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MAPK6	http://www.ncbi.nlm.nih.gov/gene/5597	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004291	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MATR3	http://www.ncbi.nlm.nih.gov/gene/9782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004292	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MBIP	http://www.ncbi.nlm.nih.gov/gene/51562	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004293	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MBNL1	http://www.ncbi.nlm.nih.gov/gene/4154	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004294	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MCL1	http://www.ncbi.nlm.nih.gov/gene/4170	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004295	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MDM2	http://www.ncbi.nlm.nih.gov/gene/4193	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004296	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MGEA5	http://www.ncbi.nlm.nih.gov/gene/10724	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004297	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MITF	http://www.ncbi.nlm.nih.gov/gene/4286	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004298	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MKL2	http://www.ncbi.nlm.nih.gov/gene/57496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004299	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MLL2	http://www.ncbi.nlm.nih.gov/gene/8085	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004300	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MLL3	http://www.ncbi.nlm.nih.gov/gene/58508	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004301	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MOSPD2	http://www.ncbi.nlm.nih.gov/gene/158747	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004302	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MPZL3	http://www.ncbi.nlm.nih.gov/gene/196264	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004303	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MRPL51	http://www.ncbi.nlm.nih.gov/gene/51258	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004304	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MRPS21	http://www.ncbi.nlm.nih.gov/gene/54460	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004305	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MRPS30	http://www.ncbi.nlm.nih.gov/gene/10884	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004306	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MSH3	http://www.ncbi.nlm.nih.gov/gene/4437	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004307	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MTDH	http://www.ncbi.nlm.nih.gov/gene/92140	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004308	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MTM1	http://www.ncbi.nlm.nih.gov/gene/4534	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004309	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MTPN	http://www.ncbi.nlm.nih.gov/gene/767558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004310	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MTUS1	http://www.ncbi.nlm.nih.gov/gene/57509	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004311	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MTX3	http://www.ncbi.nlm.nih.gov/gene/345778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004312	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MXD1	http://www.ncbi.nlm.nih.gov/gene/4084	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004313	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	MYST3	http://www.ncbi.nlm.nih.gov/gene/7994	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004314	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	N4BP1	http://www.ncbi.nlm.nih.gov/gene/9683	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004315	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	NCK1	http://www.ncbi.nlm.nih.gov/gene/4690	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004316	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	NDRG1	http://www.ncbi.nlm.nih.gov/gene/10397	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004317	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	NEK4	http://www.ncbi.nlm.nih.gov/gene/6787	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004318	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004319	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	NHLRC3	http://www.ncbi.nlm.nih.gov/gene/387921	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004320	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	NPM1	http://www.ncbi.nlm.nih.gov/gene/100129237	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004321	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	NR3C1	http://www.ncbi.nlm.nih.gov/gene/2908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004322	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	NSD1	http://www.ncbi.nlm.nih.gov/gene/64324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004323	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	NUCKS1	http://www.ncbi.nlm.nih.gov/gene/64710	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004324	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	NUDT4P1	http://www.ncbi.nlm.nih.gov/gene/440672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004325	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	NUDT5	http://www.ncbi.nlm.nih.gov/gene/11164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004326	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	NUP160	http://www.ncbi.nlm.nih.gov/gene/23279	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004327	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	NUPL1	http://www.ncbi.nlm.nih.gov/gene/9818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004328	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	OAT	http://www.ncbi.nlm.nih.gov/gene/4942	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004329	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ODF2L	http://www.ncbi.nlm.nih.gov/gene/57489	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004330	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ORMDL3	http://www.ncbi.nlm.nih.gov/gene/94103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004331	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	OSBPL8	http://www.ncbi.nlm.nih.gov/gene/114882	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004332	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PACRGL	http://www.ncbi.nlm.nih.gov/gene/133015	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004333	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PAK2	http://www.ncbi.nlm.nih.gov/gene/5062	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004334	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PCDHB2	http://www.ncbi.nlm.nih.gov/gene/56133	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004335	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PCGF3	http://www.ncbi.nlm.nih.gov/gene/10336	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004336	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PCMTD2	http://www.ncbi.nlm.nih.gov/gene/55251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004337	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PDCD10	http://www.ncbi.nlm.nih.gov/gene/11235	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004338	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PDCL	http://www.ncbi.nlm.nih.gov/gene/5082	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004339	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PIGN	http://www.ncbi.nlm.nih.gov/gene/23556	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004340	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PIKFYVE	http://www.ncbi.nlm.nih.gov/gene/200576	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004341	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PIP4K2C	http://www.ncbi.nlm.nih.gov/gene/79837	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004342	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PITPNB	http://www.ncbi.nlm.nih.gov/gene/23760	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004343	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PMS1	http://www.ncbi.nlm.nih.gov/gene/5378	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004344	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PNRC1	http://www.ncbi.nlm.nih.gov/gene/10957	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004345	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	POLR1D	http://www.ncbi.nlm.nih.gov/gene/51082	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004346	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	POMP	http://www.ncbi.nlm.nih.gov/gene/51371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004347	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	POU6F1	http://www.ncbi.nlm.nih.gov/gene/5463	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004348	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PPIB	http://www.ncbi.nlm.nih.gov/gene/5479	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004349	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PPP1R12A	http://www.ncbi.nlm.nih.gov/gene/4659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004350	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PPP2CA	http://www.ncbi.nlm.nih.gov/gene/5515	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004351	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PPP3CA	http://www.ncbi.nlm.nih.gov/gene/5530	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004352	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PPP3R1	http://www.ncbi.nlm.nih.gov/gene/5534	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004353	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PPP4R2	http://www.ncbi.nlm.nih.gov/gene/151987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004354	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PPTC7	http://www.ncbi.nlm.nih.gov/gene/160760	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004355	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PRICKLE2	http://www.ncbi.nlm.nih.gov/gene/166336	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004356	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PRNP	http://www.ncbi.nlm.nih.gov/gene/5621	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004357	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PROK2	http://www.ncbi.nlm.nih.gov/gene/60675	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004358	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PRR13	http://www.ncbi.nlm.nih.gov/gene/54458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004359	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PSAT1	http://www.ncbi.nlm.nih.gov/gene/137133	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004360	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PSMB4	http://www.ncbi.nlm.nih.gov/gene/5692	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004361	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PSMB9	http://www.ncbi.nlm.nih.gov/gene/5698	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004362	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PTPRC	http://www.ncbi.nlm.nih.gov/gene/5788	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004363	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PUM2	http://www.ncbi.nlm.nih.gov/gene/23369	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004364	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	PUS7	http://www.ncbi.nlm.nih.gov/gene/54517	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004365	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RAB11A	http://www.ncbi.nlm.nih.gov/gene/8766	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004366	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RAB11B	http://www.ncbi.nlm.nih.gov/gene/9230	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004367	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RAB11FIP2	http://www.ncbi.nlm.nih.gov/gene/22841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004368	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RAB12	http://www.ncbi.nlm.nih.gov/gene/201475	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004369	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RAB14	http://www.ncbi.nlm.nih.gov/gene/51552	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004370	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RALGPS2	http://www.ncbi.nlm.nih.gov/gene/55103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004371	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RANBP9	http://www.ncbi.nlm.nih.gov/gene/10048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004372	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RAP2C	http://www.ncbi.nlm.nih.gov/gene/57826	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004373	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RBM12	http://www.ncbi.nlm.nih.gov/gene/10137	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004374	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	REST	http://www.ncbi.nlm.nih.gov/gene/5978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004375	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RGS1	http://www.ncbi.nlm.nih.gov/gene/5996	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004376	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RHBDF2	http://www.ncbi.nlm.nih.gov/gene/79651	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004377	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RNF125	http://www.ncbi.nlm.nih.gov/gene/54941	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004378	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RNF169	http://www.ncbi.nlm.nih.gov/gene/254225	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004379	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004380	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RPAP2	http://www.ncbi.nlm.nih.gov/gene/79871	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004381	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RPL13A	http://www.ncbi.nlm.nih.gov/gene/284821	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004382	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RPRD1A	http://www.ncbi.nlm.nih.gov/gene/55197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004383	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RRM2B	http://www.ncbi.nlm.nih.gov/gene/50484	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004384	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RTF1	http://www.ncbi.nlm.nih.gov/gene/23168	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004385	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	RUFY2	http://www.ncbi.nlm.nih.gov/gene/55680	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004386	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SERINC1	http://www.ncbi.nlm.nih.gov/gene/57515	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004387	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SETD1B	http://www.ncbi.nlm.nih.gov/gene/23067	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004388	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SETD5	http://www.ncbi.nlm.nih.gov/gene/55209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004389	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SETD7	http://www.ncbi.nlm.nih.gov/gene/80854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004390	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SF3B2	http://www.ncbi.nlm.nih.gov/gene/10992	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004391	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SFPQ	http://www.ncbi.nlm.nih.gov/gene/6421	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004392	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SFRS8	http://www.ncbi.nlm.nih.gov/gene/6433	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004393	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SIRT1	http://www.ncbi.nlm.nih.gov/gene/23411	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004394	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SLC16A14	http://www.ncbi.nlm.nih.gov/gene/151473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004395	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SLC30A6	http://www.ncbi.nlm.nih.gov/gene/55676	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004396	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SMAD2	http://www.ncbi.nlm.nih.gov/gene/4087	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004397	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SMAD3	http://www.ncbi.nlm.nih.gov/gene/4088	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004398	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SMAD5	http://www.ncbi.nlm.nih.gov/gene/4090	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004399	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SMG1	http://www.ncbi.nlm.nih.gov/gene/23049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004400	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SMG7	http://www.ncbi.nlm.nih.gov/gene/9887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004401	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SMNDC1	http://www.ncbi.nlm.nih.gov/gene/10285	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004402	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SMYD5	http://www.ncbi.nlm.nih.gov/gene/10322	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004403	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SNIP1	http://www.ncbi.nlm.nih.gov/gene/79753	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004404	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SOCS5	http://www.ncbi.nlm.nih.gov/gene/9655	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004405	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SOCS6	http://www.ncbi.nlm.nih.gov/gene/9306	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004406	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SOS1	http://www.ncbi.nlm.nih.gov/gene/6654	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004407	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SPCS3	http://www.ncbi.nlm.nih.gov/gene/60559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004408	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SPRED1	http://www.ncbi.nlm.nih.gov/gene/161742	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004409	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SQSTM1	http://www.ncbi.nlm.nih.gov/gene/8878	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004410	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SSB	http://www.ncbi.nlm.nih.gov/gene/6741	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004411	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	STARD3NL	http://www.ncbi.nlm.nih.gov/gene/83930	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004412	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	STARD4	http://www.ncbi.nlm.nih.gov/gene/134429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004413	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	STAT3	http://www.ncbi.nlm.nih.gov/gene/6774	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004414	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	STK35	http://www.ncbi.nlm.nih.gov/gene/140901	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004415	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	STXBP3	http://www.ncbi.nlm.nih.gov/gene/6814	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004416	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SYNCRIP	http://www.ncbi.nlm.nih.gov/gene/10492	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004417	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	SYT4	http://www.ncbi.nlm.nih.gov/gene/6860	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004418	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TANK	http://www.ncbi.nlm.nih.gov/gene/10010	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004419	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TAOK1	http://www.ncbi.nlm.nih.gov/gene/57551	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004420	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TBCC	http://www.ncbi.nlm.nih.gov/gene/6903	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004421	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TBL1XR1	http://www.ncbi.nlm.nih.gov/gene/79718	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004422	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TET2	http://www.ncbi.nlm.nih.gov/gene/54790	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004423	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TET3	http://www.ncbi.nlm.nih.gov/gene/200424	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004424	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TFRC	http://www.ncbi.nlm.nih.gov/gene/7037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004425	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	THAP5	http://www.ncbi.nlm.nih.gov/gene/168451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004426	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	THRAP3	http://www.ncbi.nlm.nih.gov/gene/9967	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004427	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TINP1	http://www.ncbi.nlm.nih.gov/gene/10412 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004428	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TJP2	http://www.ncbi.nlm.nih.gov/gene/9414	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004429	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TMC7	http://www.ncbi.nlm.nih.gov/gene/79905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004430	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TMED7	http://www.ncbi.nlm.nih.gov/gene/353376	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004431	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TMEM161B	http://www.ncbi.nlm.nih.gov/gene/153396	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004432	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TMEM164	http://www.ncbi.nlm.nih.gov/gene/84187	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004433	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TMEM170A	http://www.ncbi.nlm.nih.gov/gene/124491	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004434	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TMEM181	http://www.ncbi.nlm.nih.gov/gene/57583	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004435	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TMEM38B	http://www.ncbi.nlm.nih.gov/gene/55151	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004436	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TMEM80	http://www.ncbi.nlm.nih.gov/gene/283232	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004437	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TMEM87A	http://www.ncbi.nlm.nih.gov/gene/25963	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004438	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TMTC3	http://www.ncbi.nlm.nih.gov/gene/160418	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004439	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TNKS1BP1	http://www.ncbi.nlm.nih.gov/gene/85456	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004440	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TNKS2	http://www.ncbi.nlm.nih.gov/gene/80351	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004441	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TNRC6A	http://www.ncbi.nlm.nih.gov/gene/27327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004442	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TOLLIP	http://www.ncbi.nlm.nih.gov/gene/54472	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004443	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TOMM20	http://www.ncbi.nlm.nih.gov/gene/100129272	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004444	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TOR1AIP2	http://www.ncbi.nlm.nih.gov/gene/163590	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004445	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004446	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TRAK1	http://www.ncbi.nlm.nih.gov/gene/22906	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004447	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TRIB1	http://www.ncbi.nlm.nih.gov/gene/10221	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004448	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TRIM23	http://www.ncbi.nlm.nih.gov/gene/373	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004449	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TRPS1	http://www.ncbi.nlm.nih.gov/gene/7227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004450	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TSNAX	http://www.ncbi.nlm.nih.gov/gene/7257	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004451	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TWISTNB	http://www.ncbi.nlm.nih.gov/gene/221830	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004452	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	TXNDC9	http://www.ncbi.nlm.nih.gov/gene/10190	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004453	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	UBA3	http://www.ncbi.nlm.nih.gov/gene/9039	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004454	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	UBE2D3	http://www.ncbi.nlm.nih.gov/gene/100037280	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004455	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	UBE2R2	http://www.ncbi.nlm.nih.gov/gene/54926	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004456	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	UBN2	http://www.ncbi.nlm.nih.gov/gene/254048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004457	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	UBR1	http://www.ncbi.nlm.nih.gov/gene/197131	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004458	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	USP31	http://www.ncbi.nlm.nih.gov/gene/57478	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004459	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	USP33	http://www.ncbi.nlm.nih.gov/gene/23032	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004460	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	USP42	http://www.ncbi.nlm.nih.gov/gene/84132	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004461	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	USP47	http://www.ncbi.nlm.nih.gov/gene/55031	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004462	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	USP6NL	http://www.ncbi.nlm.nih.gov/gene/9712	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004463	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	UTP23	http://www.ncbi.nlm.nih.gov/gene/84294	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004464	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	VAMP3	http://www.ncbi.nlm.nih.gov/gene/9341	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004465	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	VIL2	http://www.ncbi.nlm.nih.gov/gene/7430	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004466	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	WDR32	http://www.ncbi.nlm.nih.gov/gene/79269 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004467	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	WDR43	http://www.ncbi.nlm.nih.gov/gene/23160	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004468	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	WDR6	http://www.ncbi.nlm.nih.gov/gene/11180	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004469	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	WEE1	http://www.ncbi.nlm.nih.gov/gene/7465	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004470	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	WHSC1L1	http://www.ncbi.nlm.nih.gov/gene/54904	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004471	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	WNK1	http://www.ncbi.nlm.nih.gov/gene/65125	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004472	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	XIAP	http://www.ncbi.nlm.nih.gov/gene/331	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004473	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	XPO1	http://www.ncbi.nlm.nih.gov/gene/7514	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004474	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	XRCC5	http://www.ncbi.nlm.nih.gov/gene/7520	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004475	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	YY1	http://www.ncbi.nlm.nih.gov/gene/7528	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004476	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZBTB38	http://www.ncbi.nlm.nih.gov/gene/253461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004477	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZBTB44	http://www.ncbi.nlm.nih.gov/gene/29068	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004478	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZBTB6	http://www.ncbi.nlm.nih.gov/gene/10773	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004479	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZC3H4	http://www.ncbi.nlm.nih.gov/gene/23211	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004480	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZFAND1	http://www.ncbi.nlm.nih.gov/gene/79752	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004481	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZHX1	http://www.ncbi.nlm.nih.gov/gene/11244	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004482	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZMAT3	http://www.ncbi.nlm.nih.gov/gene/64393	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004483	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZMYM2	http://www.ncbi.nlm.nih.gov/gene/7750	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004484	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZMYND8	http://www.ncbi.nlm.nih.gov/gene/23613	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004485	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZNF12	http://www.ncbi.nlm.nih.gov/gene/7559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004486	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZNF192	http://www.ncbi.nlm.nih.gov/gene/7745	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004487	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZNF295	http://www.ncbi.nlm.nih.gov/gene/49854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004488	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZNF655	http://www.ncbi.nlm.nih.gov/gene/79027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004489	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZNF738	http://www.ncbi.nlm.nih.gov/gene/148203	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004490	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZNF747	http://www.ncbi.nlm.nih.gov/gene/65988	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004491	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZNF772	http://www.ncbi.nlm.nih.gov/gene/400720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004492	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(ebv-mir-bart22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	BC-1	-	Host	mRNA	ZNF91	http://www.ncbi.nlm.nih.gov/gene/7644	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004493	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(BART-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	-	-	Host	Protein	DAZAP2	http://www.ncbi.nlm.nih.gov/gene/9802	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.
VHID00004494	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(BART-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	-	-	Host	Protein	IPO7	http://www.ncbi.nlm.nih.gov/gene/10527	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.
VHID00004495	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(BART-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	-	-	Host	Protein	PDE7A	http://www.ncbi.nlm.nih.gov/gene/5150	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.
VHID00004496	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(BART3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	-	-	Host	mRNA	CLEC2D	http://www.ncbi.nlm.nih.gov/gene/29121	-	PAR-CLIP.	23170179	In addition, CLEC2D/LLT1 was identified as a target of BART1 and BART3 by PAR-CLIP.
VHID00004497	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-miR-BART3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	human B cells	-	Host	Protein	IPO7	http://www.ncbi.nlm.nih.gov/gene/10527	Downregulation	Luciferase assays, RISC immunoprecipitation assay.TaqMan PCR.RIP-Chip analysis.	20413099	Luciferase assays with sensor vectors carrying the 3'UTRs of TOMM22 and IPO7 demonstrated significant repression by ebv-miR-BART16 and ebv-miR-BART3, respectively.
VHID00004498	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ACTR2	http://www.ncbi.nlm.nih.gov/gene/10097	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004499	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ADRB1	http://www.ncbi.nlm.nih.gov/gene/153	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004500	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ALS2	http://www.ncbi.nlm.nih.gov/gene/57679	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004501	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ANKRD13C	http://www.ncbi.nlm.nih.gov/gene/81573	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004502	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ANLN	http://www.ncbi.nlm.nih.gov/gene/54443	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004503	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ARFGEF2	http://www.ncbi.nlm.nih.gov/gene/10564	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004504	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ARL5B	http://www.ncbi.nlm.nih.gov/gene/221079	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004505	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ASB8	http://www.ncbi.nlm.nih.gov/gene/140461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004506	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ASPH	http://www.ncbi.nlm.nih.gov/gene/444	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004507	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	BCL7A	http://www.ncbi.nlm.nih.gov/gene/605	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004508	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	BIVM	http://www.ncbi.nlm.nih.gov/gene/54841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004509	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	BNIP2	http://www.ncbi.nlm.nih.gov/gene/663	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004510	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	BRD4	http://www.ncbi.nlm.nih.gov/gene/23476	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004511	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	BRE	http://www.ncbi.nlm.nih.gov/gene/9577	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004512	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	BRMS1L	http://www.ncbi.nlm.nih.gov/gene/84312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004513	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	C11orf24	http://www.ncbi.nlm.nih.gov/gene/53838	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004514	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	C12orf65	http://www.ncbi.nlm.nih.gov/gene/91574	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004515	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	C18orf25	http://www.ncbi.nlm.nih.gov/gene/147339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004516	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	C1orf107	http://www.ncbi.nlm.nih.gov/gene/27042	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004517	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	C20orf112	http://www.ncbi.nlm.nih.gov/gene/140688	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004518	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	C21orf91	http://www.ncbi.nlm.nih.gov/gene/54149	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004519	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	C9orf126	http://www.ncbi.nlm.nih.gov/gene/286205 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004520	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	CAMSAP1L1	http://www.ncbi.nlm.nih.gov/gene/23271	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004521	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	CAND1	http://www.ncbi.nlm.nih.gov/gene/55832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004522	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	CASP10	http://www.ncbi.nlm.nih.gov/gene/843	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004523	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004524	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	CBX5	http://www.ncbi.nlm.nih.gov/gene/23468	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004525	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	CCDC117	http://www.ncbi.nlm.nih.gov/gene/150275	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004526	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	CDCA4	http://www.ncbi.nlm.nih.gov/gene/55038	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004527	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	CDK6	http://www.ncbi.nlm.nih.gov/gene/1021	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004528	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	COMMD2	http://www.ncbi.nlm.nih.gov/gene/51122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004529	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	CSDE1	http://www.ncbi.nlm.nih.gov/gene/7812	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004530	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	CUL5	http://www.ncbi.nlm.nih.gov/gene/8065	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004531	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	CUX1	http://www.ncbi.nlm.nih.gov/gene/1523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004532	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	DAZAP2	http://www.ncbi.nlm.nih.gov/gene/9802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004533	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	DCC	http://www.ncbi.nlm.nih.gov/gene/1630	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004534	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	DDHD2	http://www.ncbi.nlm.nih.gov/gene/23259	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004535	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	DDX5	http://www.ncbi.nlm.nih.gov/gene/1655	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004536	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	DIDO1	http://www.ncbi.nlm.nih.gov/gene/11083	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004537	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	DNAJC27	http://www.ncbi.nlm.nih.gov/gene/51277	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004538	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	DPP8	http://www.ncbi.nlm.nih.gov/gene/54878	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004539	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	EAF1	http://www.ncbi.nlm.nih.gov/gene/85403	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004540	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	EIF4G1	http://www.ncbi.nlm.nih.gov/gene/1981	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004541	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ENC1	http://www.ncbi.nlm.nih.gov/gene/8507	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004542	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	EP300	http://www.ncbi.nlm.nih.gov/gene/2033	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004543	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	EPRS	http://www.ncbi.nlm.nih.gov/gene/2058	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004544	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	EXOC5	http://www.ncbi.nlm.nih.gov/gene/10640	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004545	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	FAM126B	http://www.ncbi.nlm.nih.gov/gene/285172	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004546	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	FAM136A	http://www.ncbi.nlm.nih.gov/gene/84908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004547	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	FAM46C	http://www.ncbi.nlm.nih.gov/gene/54855	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004548	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	FBXW7	http://www.ncbi.nlm.nih.gov/gene/55294	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004549	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	FEM1A	http://www.ncbi.nlm.nih.gov/gene/55527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004550	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	FEM1B	http://www.ncbi.nlm.nih.gov/gene/10116	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004551	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	FOXK1	http://www.ncbi.nlm.nih.gov/gene/221937	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004552	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	FOXK2	http://www.ncbi.nlm.nih.gov/gene/3607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004553	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	GNAQ	http://www.ncbi.nlm.nih.gov/gene/2776	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004554	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	GOLGA1	http://www.ncbi.nlm.nih.gov/gene/2800	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004555	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	GOLGA8A	http://www.ncbi.nlm.nih.gov/gene/440270	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004556	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	GPATCH3	http://www.ncbi.nlm.nih.gov/gene/63906	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004557	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	HBP1	http://www.ncbi.nlm.nih.gov/gene/26959	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004558	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	HIPK1	http://www.ncbi.nlm.nih.gov/gene/204851	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004559	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	HMGCS1	http://www.ncbi.nlm.nih.gov/gene/3157	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004560	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	HUWE1	http://www.ncbi.nlm.nih.gov/gene/10075	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004561	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	IFNAR2	http://www.ncbi.nlm.nih.gov/gene/3455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004562	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	IL16	http://www.ncbi.nlm.nih.gov/gene/3603	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004563	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	IPO7	http://www.ncbi.nlm.nih.gov/gene/10527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004564	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	IRF1	http://www.ncbi.nlm.nih.gov/gene/3659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004565	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	KLF12	http://www.ncbi.nlm.nih.gov/gene/11278	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004566	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	KLF2	http://www.ncbi.nlm.nih.gov/gene/10365	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004567	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	KLF6	http://www.ncbi.nlm.nih.gov/gene/1316	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004568	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	KPNA4	http://www.ncbi.nlm.nih.gov/gene/3840	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004569	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	KPNA5	http://www.ncbi.nlm.nih.gov/gene/3841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004570	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	LIN7C	http://www.ncbi.nlm.nih.gov/gene/55327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004571	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	MAPK1	http://www.ncbi.nlm.nih.gov/gene/5594	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004572	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	MBTD1	http://www.ncbi.nlm.nih.gov/gene/54799	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004573	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	MBTPS2	http://www.ncbi.nlm.nih.gov/gene/51360	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004574	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	MGA	http://www.ncbi.nlm.nih.gov/gene/23269	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004575	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	MTMR1	http://www.ncbi.nlm.nih.gov/gene/8776	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004576	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	NAP1L5	http://www.ncbi.nlm.nih.gov/gene/266812	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004577	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	NCOA3	http://www.ncbi.nlm.nih.gov/gene/8202	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004578	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	NDRG1	http://www.ncbi.nlm.nih.gov/gene/10397	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004579	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	NFYC	http://www.ncbi.nlm.nih.gov/gene/4802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004580	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	NUDCD1	http://www.ncbi.nlm.nih.gov/gene/84955	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004581	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PANK1	http://www.ncbi.nlm.nih.gov/gene/53354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004582	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PARD6B	http://www.ncbi.nlm.nih.gov/gene/84612	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004583	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PHC3	http://www.ncbi.nlm.nih.gov/gene/80012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004584	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PHTF2	http://www.ncbi.nlm.nih.gov/gene/57157	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004585	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PIK3C3	http://www.ncbi.nlm.nih.gov/gene/5289	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004586	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PIK3CB	http://www.ncbi.nlm.nih.gov/gene/5291	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004587	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PLEC1	http://www.ncbi.nlm.nih.gov/gene/5339 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004588	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	POLR1D	http://www.ncbi.nlm.nih.gov/gene/51082	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004589	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004590	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PPARA	http://www.ncbi.nlm.nih.gov/gene/5465	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004591	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PPP3CA	http://www.ncbi.nlm.nih.gov/gene/5530	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004592	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PPP3R1	http://www.ncbi.nlm.nih.gov/gene/5534	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004593	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PRDM1	http://www.ncbi.nlm.nih.gov/gene/639	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004594	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PRICKLE2	http://www.ncbi.nlm.nih.gov/gene/166336	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004595	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PSMA4	http://www.ncbi.nlm.nih.gov/gene/5685	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004596	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PSMD11	http://www.ncbi.nlm.nih.gov/gene/5717	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004597	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PSMD5	http://www.ncbi.nlm.nih.gov/gene/5711	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004598	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PTAR1	http://www.ncbi.nlm.nih.gov/gene/375743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004599	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	PTPN4	http://www.ncbi.nlm.nih.gov/gene/5775	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004600	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	QSER1	http://www.ncbi.nlm.nih.gov/gene/79832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004601	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	RAD21	http://www.ncbi.nlm.nih.gov/gene/5885	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004602	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	RASSF5	http://www.ncbi.nlm.nih.gov/gene/83593	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004603	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	RBMS2P	http://www.ncbi.nlm.nih.gov/gene/643427 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004604	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	RC3H1	http://www.ncbi.nlm.nih.gov/gene/149041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004605	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	RCOR3	http://www.ncbi.nlm.nih.gov/gene/55758	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004606	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	RNF160	http://www.ncbi.nlm.nih.gov/gene/26046	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004607	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ROD1	http://www.ncbi.nlm.nih.gov/gene/9991	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004608	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	RPIA	http://www.ncbi.nlm.nih.gov/gene/22934	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004609	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	RPL22	http://www.ncbi.nlm.nih.gov/gene/402100	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004610	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	RPS6KB1	http://www.ncbi.nlm.nih.gov/gene/6198	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004611	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	SEC24A	http://www.ncbi.nlm.nih.gov/gene/10802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004612	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	SEPSECS	http://www.ncbi.nlm.nih.gov/gene/51091	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004613	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	SERBP1	http://www.ncbi.nlm.nih.gov/gene/26135	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004614	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	SERTAD2	http://www.ncbi.nlm.nih.gov/gene/9792	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004615	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	SETDB1	http://www.ncbi.nlm.nih.gov/gene/9869	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004616	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	SFRS12	http://www.ncbi.nlm.nih.gov/gene/140890	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004617	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	SH3BGRL2	http://www.ncbi.nlm.nih.gov/gene/83699	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004618	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	SH3BP2	http://www.ncbi.nlm.nih.gov/gene/6452	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004619	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	SHISA5	http://www.ncbi.nlm.nih.gov/gene/51246	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004620	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	SLC16A1	http://www.ncbi.nlm.nih.gov/gene/6566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004621	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	SMARCAD1	http://www.ncbi.nlm.nih.gov/gene/56916	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004622	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	SMARCC1	http://www.ncbi.nlm.nih.gov/gene/6599	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004623	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	SMU1	http://www.ncbi.nlm.nih.gov/gene/55234	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004624	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	SOCS6	http://www.ncbi.nlm.nih.gov/gene/9306	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004625	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	SSR3	http://www.ncbi.nlm.nih.gov/gene/6747	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004626	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	STIM2	http://www.ncbi.nlm.nih.gov/gene/57620	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004627	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	STK38	http://www.ncbi.nlm.nih.gov/gene/11329	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004628	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	STK38L	http://www.ncbi.nlm.nih.gov/gene/23012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004629	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	STRN	http://www.ncbi.nlm.nih.gov/gene/6801	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004630	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	SYNJ2BP	http://www.ncbi.nlm.nih.gov/gene/55333	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004631	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	TAF13	http://www.ncbi.nlm.nih.gov/gene/6884	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004632	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	TAF2	http://www.ncbi.nlm.nih.gov/gene/6873	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004633	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	TBL1XR1	http://www.ncbi.nlm.nih.gov/gene/79718	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004634	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	TET1	http://www.ncbi.nlm.nih.gov/gene/80312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004635	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	TET3	http://www.ncbi.nlm.nih.gov/gene/200424	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004636	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	THOC7	http://www.ncbi.nlm.nih.gov/gene/80145	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004637	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	TLE3	http://www.ncbi.nlm.nih.gov/gene/7090	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004638	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	TMEM111	http://www.ncbi.nlm.nih.gov/gene/55831	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004639	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	TSEN15	http://www.ncbi.nlm.nih.gov/gene/116461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004640	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	UAP1L1	http://www.ncbi.nlm.nih.gov/gene/91373	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004641	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	UBE2Z	http://www.ncbi.nlm.nih.gov/gene/65264	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004642	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	UBE4A	http://www.ncbi.nlm.nih.gov/gene/9354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004643	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	USP42	http://www.ncbi.nlm.nih.gov/gene/84132	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004644	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	UTP14C	http://www.ncbi.nlm.nih.gov/gene/9724	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004645	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	WDR26	http://www.ncbi.nlm.nih.gov/gene/80232	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004646	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	XPO1	http://www.ncbi.nlm.nih.gov/gene/7514	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004647	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ZMYM2	http://www.ncbi.nlm.nih.gov/gene/7750	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004648	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ZMYM4	http://www.ncbi.nlm.nih.gov/gene/9202	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004649	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ZNF282	http://www.ncbi.nlm.nih.gov/gene/8427	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004650	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ZNF498	http://www.ncbi.nlm.nih.gov/gene/221785	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004651	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ZNF644	http://www.ncbi.nlm.nih.gov/gene/84146	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004652	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	BC-1	-	Host	mRNA	ZNF714	http://www.ncbi.nlm.nih.gov/gene/148206	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004653	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	AIM1	http://www.ncbi.nlm.nih.gov/gene/202	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004654	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	APAF1	http://www.ncbi.nlm.nih.gov/gene/317	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004655	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	ARFGEF2	http://www.ncbi.nlm.nih.gov/gene/10564	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004656	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	ARHGAP11A	http://www.ncbi.nlm.nih.gov/gene/89839	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004657	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	ARL5B	http://www.ncbi.nlm.nih.gov/gene/221079	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004658	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	AURKC	http://www.ncbi.nlm.nih.gov/gene/6795	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004659	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	BASP1	http://www.ncbi.nlm.nih.gov/gene/10409	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004660	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	BNIP2	http://www.ncbi.nlm.nih.gov/gene/663	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004661	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	BRD4	http://www.ncbi.nlm.nih.gov/gene/23476	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004662	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	BRE	http://www.ncbi.nlm.nih.gov/gene/9577	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004663	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	BRWD1	http://www.ncbi.nlm.nih.gov/gene/54014	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004664	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	C11orf24	http://www.ncbi.nlm.nih.gov/gene/53838	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004665	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	C12orf30	http://www.ncbi.nlm.nih.gov/gene/80018 	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004666	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	C12orf65	http://www.ncbi.nlm.nih.gov/gene/91574	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004667	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	C18orf25	http://www.ncbi.nlm.nih.gov/gene/147339	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004668	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	C20orf112	http://www.ncbi.nlm.nih.gov/gene/140688	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004669	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	C21orf91	http://www.ncbi.nlm.nih.gov/gene/54149	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004670	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	CAND1	http://www.ncbi.nlm.nih.gov/gene/55832	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004671	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	CBX5	http://www.ncbi.nlm.nih.gov/gene/23468	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004672	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	CCDC117	http://www.ncbi.nlm.nih.gov/gene/150275	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004673	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	CDK6	http://www.ncbi.nlm.nih.gov/gene/1021	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004674	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	CHEK1	http://www.ncbi.nlm.nih.gov/gene/1111	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004675	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	CNOT1	http://www.ncbi.nlm.nih.gov/gene/23019	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004676	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	CUL5	http://www.ncbi.nlm.nih.gov/gene/8065	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004677	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	CUX1	http://www.ncbi.nlm.nih.gov/gene/1523	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004678	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	DAPK1	http://www.ncbi.nlm.nih.gov/gene/1612	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004679	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	DAZAP2	http://www.ncbi.nlm.nih.gov/gene/9802	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004680	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	DDX5	http://www.ncbi.nlm.nih.gov/gene/1655	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004681	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	DNAJA1	http://www.ncbi.nlm.nih.gov/gene/3301	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004682	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	EAF1	http://www.ncbi.nlm.nih.gov/gene/85403	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004683	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	EIF4G1	http://www.ncbi.nlm.nih.gov/gene/1981	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004684	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	EPRS	http://www.ncbi.nlm.nih.gov/gene/2058	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004685	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	FAM179B	http://www.ncbi.nlm.nih.gov/gene/23116	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004686	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	FEM1B	http://www.ncbi.nlm.nih.gov/gene/10116	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004687	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	FMNL3	http://www.ncbi.nlm.nih.gov/gene/91010	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004688	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	FNDC3A	http://www.ncbi.nlm.nih.gov/gene/22862	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004689	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	FOXK2	http://www.ncbi.nlm.nih.gov/gene/3607	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004690	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	GOLGA1	http://www.ncbi.nlm.nih.gov/gene/2800	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004691	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	GOLGA8A	http://www.ncbi.nlm.nih.gov/gene/440270	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004692	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	HIPK1	http://www.ncbi.nlm.nih.gov/gene/204851	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004693	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	HLA-C	http://www.ncbi.nlm.nih.gov/gene/3106	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004694	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	HMGCS1	http://www.ncbi.nlm.nih.gov/gene/3157	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004695	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	HUWE1	http://www.ncbi.nlm.nih.gov/gene/10075	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004696	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	IFNAR2	http://www.ncbi.nlm.nih.gov/gene/3455	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004697	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	IPO7	http://www.ncbi.nlm.nih.gov/gene/10527	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004698	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	IRF1	http://www.ncbi.nlm.nih.gov/gene/3659	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004699	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	ITPRIPL2	http://www.ncbi.nlm.nih.gov/gene/162073	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004700	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	KLF12	http://www.ncbi.nlm.nih.gov/gene/11278	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004701	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	KLF2	http://www.ncbi.nlm.nih.gov/gene/10365	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004702	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	KTI12	http://www.ncbi.nlm.nih.gov/gene/112970	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004703	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	LDHB	http://www.ncbi.nlm.nih.gov/gene/3945	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004704	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	MBTD1	http://www.ncbi.nlm.nih.gov/gene/54799	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004705	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	MGA	http://www.ncbi.nlm.nih.gov/gene/23269	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004706	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	MKI67	http://www.ncbi.nlm.nih.gov/gene/4288	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004707	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	NAP1L5	http://www.ncbi.nlm.nih.gov/gene/266812	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004708	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	NCOA3	http://www.ncbi.nlm.nih.gov/gene/8202	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004709	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	NFYC	http://www.ncbi.nlm.nih.gov/gene/4802	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004710	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	PANK1	http://www.ncbi.nlm.nih.gov/gene/53354	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004711	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	PANK3	http://www.ncbi.nlm.nih.gov/gene/79646	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004712	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	PARD6B	http://www.ncbi.nlm.nih.gov/gene/84612	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004713	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	PEG10	http://www.ncbi.nlm.nih.gov/gene/23089	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004714	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	PLXNC1	http://www.ncbi.nlm.nih.gov/gene/10154	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004715	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	POLR1D	http://www.ncbi.nlm.nih.gov/gene/51082	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004716	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004717	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	PPARGC1B	http://www.ncbi.nlm.nih.gov/gene/133522	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004718	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	PPP3CA	http://www.ncbi.nlm.nih.gov/gene/5530	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004719	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	PSMA4	http://www.ncbi.nlm.nih.gov/gene/5685	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004720	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	PSMB4	http://www.ncbi.nlm.nih.gov/gene/5692	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004721	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	PSMD11	http://www.ncbi.nlm.nih.gov/gene/5717	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004722	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	PSMD5	http://www.ncbi.nlm.nih.gov/gene/5711	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004723	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	PTAR1	http://www.ncbi.nlm.nih.gov/gene/375743	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004724	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	QSER1	http://www.ncbi.nlm.nih.gov/gene/79832	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004725	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	RPS6KB1	http://www.ncbi.nlm.nih.gov/gene/6198	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004726	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	SAMD9L	http://www.ncbi.nlm.nih.gov/gene/219285	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004727	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	SCMH1	http://www.ncbi.nlm.nih.gov/gene/22955	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004728	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	SEC23A	http://www.ncbi.nlm.nih.gov/gene/10484	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004729	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	SEC31A	http://www.ncbi.nlm.nih.gov/gene/22872	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004730	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	SERINC3	http://www.ncbi.nlm.nih.gov/gene/10955	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004731	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	SFRS12	http://www.ncbi.nlm.nih.gov/gene/140890	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004732	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	SH3BP2	http://www.ncbi.nlm.nih.gov/gene/6452	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004733	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	SH3PXD2A	http://www.ncbi.nlm.nih.gov/gene/9644	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004734	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	SLC16A1	http://www.ncbi.nlm.nih.gov/gene/6566	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004735	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	SMARCAD1	http://www.ncbi.nlm.nih.gov/gene/56916	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004736	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	SMU1	http://www.ncbi.nlm.nih.gov/gene/55234	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004737	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	SOCS6	http://www.ncbi.nlm.nih.gov/gene/9306	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004738	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	STEAP3	http://www.ncbi.nlm.nih.gov/gene/55240	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004739	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	STIM2	http://www.ncbi.nlm.nih.gov/gene/57620	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004740	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	STK38	http://www.ncbi.nlm.nih.gov/gene/11329	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004741	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	STK38L	http://www.ncbi.nlm.nih.gov/gene/23012	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004742	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	STRN	http://www.ncbi.nlm.nih.gov/gene/6801	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004743	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	TAF13	http://www.ncbi.nlm.nih.gov/gene/6884	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004744	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	TBC1D23	http://www.ncbi.nlm.nih.gov/gene/55773	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004745	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	TBL1XR1	http://www.ncbi.nlm.nih.gov/gene/79718	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004746	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	TCP1	http://www.ncbi.nlm.nih.gov/gene/400013	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004747	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	TET3	http://www.ncbi.nlm.nih.gov/gene/200424	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004748	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	THOC7	http://www.ncbi.nlm.nih.gov/gene/80145	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004749	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	TIMM17A	http://www.ncbi.nlm.nih.gov/gene/10440	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004750	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	TLE3	http://www.ncbi.nlm.nih.gov/gene/7090	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004751	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	TUBA1	http://www.ncbi.nlm.nih.gov/gene/7277	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004752	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	UAP1L1	http://www.ncbi.nlm.nih.gov/gene/91373	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004753	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	UBE2Z	http://www.ncbi.nlm.nih.gov/gene/65264	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004754	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	USP47	http://www.ncbi.nlm.nih.gov/gene/55031	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004755	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	UTP14C	http://www.ncbi.nlm.nih.gov/gene/9724	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004756	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	WDR26	http://www.ncbi.nlm.nih.gov/gene/80232	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004757	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	ZC3H12C	http://www.ncbi.nlm.nih.gov/gene/85463	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004758	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	ZC3H4	http://www.ncbi.nlm.nih.gov/gene/23211	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004759	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	ZFP3	http://www.ncbi.nlm.nih.gov/gene/124961	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004760	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	ZMYM2	http://www.ncbi.nlm.nih.gov/gene/7750	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004761	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	ZNF644	http://www.ncbi.nlm.nih.gov/gene/84146	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004762	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	ZNF714	http://www.ncbi.nlm.nih.gov/gene/148206	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004763	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(ebv-mir-bart3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	Lymphoblastoid cell lines	-	Host	mRNA	ZSCAN25(ZNF498)		-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004764	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(miR-BART3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	-	-	Host	Protein	IPO7	http://www.ncbi.nlm.nih.gov/gene/10527	Downregulation	Luciferase assays, RISC immunoprecipitation assay.TaqMan PCR.RIP-Chip analysis.	22100165	A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.Luciferase assays with sensor vectors carrying the 30UTRs of TOMM22 and IPO7 demonstrated significant repression by ebv-miR-BART16 and ebv-miR-BART3, respectively.
VHID00004765	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(miR-BART3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	293T cells	-	Host	Protein	NFKB1	http://www.ncbi.nlm.nih.gov/gene/4790	Downregulation	luciferase reporter assays, photoactivatable cross-linking and immunoprecipitation(PAR-CLIP), and deep sequencing and qRT-PCR.	24257599	Indeed, miR-BART3, miR-BART5, and miR-BART16 each inhibited NFKB activation when cotransfected with full-length LMP1.These data demonstrate that miR-rL1-8 can functionally substitute for miRBART5 and that miR-BART5 and miR-BART16 negatively regulate NFKB signaling by directly targeting the LMP1 3'UTR.
VHID00004766	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(miR-BART3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	epithelial cell lines	-	Host	Protein	BCL2L11(BimEL)	http://www.ncbi.nlm.nih.gov/gene/396632	Downregulation	Northern Blot analysis and quantitative RT-PCR, Western Blot analysis, Microarray analysis, ciferase Assays.	21333317	Analysis of the BimEL protein levels in cells expressing the miRNAs revealed that its expression was affected by several of the individual miRNAs with cell lines expressing miR-BART1, 3, 9, 11 and 12 all having decreased BimEL levels (Figure 6B and C).
VHID00004767	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(miR-BART3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	epithelial cell lines	-	Host	mRNA	BCL2L11(BIM)	http://www.ncbi.nlm.nih.gov/gene/396632	Downregulation	Northern Blot analysis and quantitative RT-PCR, Western Blot analysis, Microarray analysis, ciferase Assays.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00004768	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(mir-BART3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	B cell lymphomagenesis	-	Host	mRNA	DICER1	http://www.ncbi.nlm.nih.gov/gene/23405	-	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00004769	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(mir-BART3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	B cell lymphomagenesis	-	Host	mRNA	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	-	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00004770	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(pre-miR-BART3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	NPC cells	-	Host	Protein	INTS6(DICE1)	http://www.ncbi.nlm.nih.gov/gene/26512	Downregulation	Microarray analysis.	23280823	Taken together, our findings suggest that EBV encoded miR-BART3* miRNA targets DICE1 tumor suppressor to promote cellular growth and transformation in NPC.Enforced expression of miR-BART3* or its precursor pre-miR-BART3 led to down-regulation of endogenous DICE1 expression.
VHID00004771	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(BART4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	-	-	Host	Protein	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.
VHID00004772	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	MARCH5		-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004773	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	ABL2	http://www.ncbi.nlm.nih.gov/gene/27	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004774	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	ADPGK	http://www.ncbi.nlm.nih.gov/gene/83440	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004775	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	ATP11B	http://www.ncbi.nlm.nih.gov/gene/23200	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004776	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	ATP6V1C1	http://www.ncbi.nlm.nih.gov/gene/528	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004777	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	ATPAF1	http://www.ncbi.nlm.nih.gov/gene/64756	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004778	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	BRWD1	http://www.ncbi.nlm.nih.gov/gene/54014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004779	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	C13orf23	http://www.ncbi.nlm.nih.gov/gene/80209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004780	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	C1orf55	http://www.ncbi.nlm.nih.gov/gene/163859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004781	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	C21orf91	http://www.ncbi.nlm.nih.gov/gene/54149	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004782	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	C7orf11	http://www.ncbi.nlm.nih.gov/gene/136647	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004783	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	CCDC14	http://www.ncbi.nlm.nih.gov/gene/64770	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004784	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004785	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	CPEB3	http://www.ncbi.nlm.nih.gov/gene/22849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004786	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	EIF4A2	http://www.ncbi.nlm.nih.gov/gene/286512	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004787	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	ELF1	http://www.ncbi.nlm.nih.gov/gene/1997	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004788	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	ELK4	http://www.ncbi.nlm.nih.gov/gene/2005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004789	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	FAM168B	http://www.ncbi.nlm.nih.gov/gene/130074	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004790	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	FBXO28	http://www.ncbi.nlm.nih.gov/gene/23219	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004791	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	FEM1C	http://www.ncbi.nlm.nih.gov/gene/56929	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004792	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	G3BP1	http://www.ncbi.nlm.nih.gov/gene/10146	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004793	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	GAB1	http://www.ncbi.nlm.nih.gov/gene/2549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004794	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	GLCCI1	http://www.ncbi.nlm.nih.gov/gene/113263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004795	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	GM2A	http://www.ncbi.nlm.nih.gov/gene/2760	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004796	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	IGF2BP3	http://www.ncbi.nlm.nih.gov/gene/10643	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004797	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	JMJD1C	http://www.ncbi.nlm.nih.gov/gene/221037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004798	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	KIAA1826	http://www.ncbi.nlm.nih.gov/gene/84437	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004799	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	KIAA1919	http://www.ncbi.nlm.nih.gov/gene/91749	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004800	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	KLHL15	http://www.ncbi.nlm.nih.gov/gene/80311	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004801	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	LCOR	http://www.ncbi.nlm.nih.gov/gene/84458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004802	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	LIX1L	http://www.ncbi.nlm.nih.gov/gene/128077	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004803	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	MAP3K2	http://www.ncbi.nlm.nih.gov/gene/10746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004804	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	MAP4K4	http://www.ncbi.nlm.nih.gov/gene/9448	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004805	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	MAPK8	http://www.ncbi.nlm.nih.gov/gene/5599	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004806	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	MARS2	http://www.ncbi.nlm.nih.gov/gene/92935	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004807	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	MAT2B	http://www.ncbi.nlm.nih.gov/gene/27430	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004808	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	MDM4	http://www.ncbi.nlm.nih.gov/gene/4194	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004809	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	MIB1	http://www.ncbi.nlm.nih.gov/gene/57534	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004810	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	MSC	http://www.ncbi.nlm.nih.gov/gene/9242	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004811	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	NDNL2	http://www.ncbi.nlm.nih.gov/gene/56160	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004812	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	NUPL1	http://www.ncbi.nlm.nih.gov/gene/9818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004813	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	OXR1	http://www.ncbi.nlm.nih.gov/gene/55074	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004814	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	PANK3	http://www.ncbi.nlm.nih.gov/gene/79646	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004815	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	PPP2CA	http://www.ncbi.nlm.nih.gov/gene/5515	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004816	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	PPTC7	http://www.ncbi.nlm.nih.gov/gene/160760	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004817	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	RAB11FIP2	http://www.ncbi.nlm.nih.gov/gene/22841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004818	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	RNF34	http://www.ncbi.nlm.nih.gov/gene/80196	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004819	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	SNX1	http://www.ncbi.nlm.nih.gov/gene/6642	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004820	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	STARD4	http://www.ncbi.nlm.nih.gov/gene/134429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004821	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	STK17B	http://www.ncbi.nlm.nih.gov/gene/9262	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004822	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	TECPR1	http://www.ncbi.nlm.nih.gov/gene/25851	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004823	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	TMPO	http://www.ncbi.nlm.nih.gov/gene/7112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004824	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	TMTC3	http://www.ncbi.nlm.nih.gov/gene/160418	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004825	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	TRIB1	http://www.ncbi.nlm.nih.gov/gene/10221	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004826	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	TRIM23	http://www.ncbi.nlm.nih.gov/gene/373	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004827	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	UHMK1	http://www.ncbi.nlm.nih.gov/gene/127933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004828	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	VKORC1L1	http://www.ncbi.nlm.nih.gov/gene/154807	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004829	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	YIPF4	http://www.ncbi.nlm.nih.gov/gene/84272	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004830	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	YIPF5	http://www.ncbi.nlm.nih.gov/gene/81555	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004831	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	ZNF217	http://www.ncbi.nlm.nih.gov/gene/7764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004832	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	ZNF225	http://www.ncbi.nlm.nih.gov/gene/7768	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004833	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	ZNF451	http://www.ncbi.nlm.nih.gov/gene/26036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004834	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	ZNF551	http://www.ncbi.nlm.nih.gov/gene/90233	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004835	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	BC-1	-	Host	mRNA	ZNF614	http://www.ncbi.nlm.nih.gov/gene/80110	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004836	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	ABL2	http://www.ncbi.nlm.nih.gov/gene/27	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004837	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	ADPGK	http://www.ncbi.nlm.nih.gov/gene/83440	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004838	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	ANKRA2	http://www.ncbi.nlm.nih.gov/gene/57763	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004839	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	AP1S2	http://www.ncbi.nlm.nih.gov/gene/8905	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004840	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	ARID1A	http://www.ncbi.nlm.nih.gov/gene/8289	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004841	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	C13orf23	http://www.ncbi.nlm.nih.gov/gene/80209	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004842	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	C1orf55	http://www.ncbi.nlm.nih.gov/gene/163859	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004843	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	C21orf91	http://www.ncbi.nlm.nih.gov/gene/54149	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004844	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	C6orf89	http://www.ncbi.nlm.nih.gov/gene/221477	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004845	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	C7orf11	http://www.ncbi.nlm.nih.gov/gene/136647	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004846	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	CCDC14	http://www.ncbi.nlm.nih.gov/gene/64770	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004847	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004848	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	DNAH17	http://www.ncbi.nlm.nih.gov/gene/8632	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004849	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	ELF1	http://www.ncbi.nlm.nih.gov/gene/1997	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004850	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	EPSTI1	http://www.ncbi.nlm.nih.gov/gene/94240	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004851	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	FAM175B	http://www.ncbi.nlm.nih.gov/gene/23172	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004852	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	FAM49B	http://www.ncbi.nlm.nih.gov/gene/51571	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004853	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	FBXO28	http://www.ncbi.nlm.nih.gov/gene/23219	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004854	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	G3BP1	http://www.ncbi.nlm.nih.gov/gene/10146	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004855	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	GPD2	http://www.ncbi.nlm.nih.gov/gene/2820	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004856	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	HIATL1	http://www.ncbi.nlm.nih.gov/gene/84641	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004857	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	HUWE1	http://www.ncbi.nlm.nih.gov/gene/10075	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004858	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	IFNGR2	http://www.ncbi.nlm.nih.gov/gene/3460	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004859	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	IGJ	http://www.ncbi.nlm.nih.gov/gene/3512	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004860	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	KIAA1429	http://www.ncbi.nlm.nih.gov/gene/25962	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004861	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	KIAA1826	http://www.ncbi.nlm.nih.gov/gene/84437	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004862	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	KIAA1919	http://www.ncbi.nlm.nih.gov/gene/91749	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004863	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	LCOR	http://www.ncbi.nlm.nih.gov/gene/84458	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004864	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	LIX1L	http://www.ncbi.nlm.nih.gov/gene/128077	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004865	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	MAP3K2	http://www.ncbi.nlm.nih.gov/gene/10746	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004866	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	MARS2	http://www.ncbi.nlm.nih.gov/gene/92935	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004867	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	MLL2	http://www.ncbi.nlm.nih.gov/gene/8085	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004868	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	NDNL2	http://www.ncbi.nlm.nih.gov/gene/56160	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004869	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	NDUFA7	http://www.ncbi.nlm.nih.gov/gene/4701	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004870	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	NSD1	http://www.ncbi.nlm.nih.gov/gene/64324	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004871	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	OGDH	http://www.ncbi.nlm.nih.gov/gene/4967	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004872	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	PANK3	http://www.ncbi.nlm.nih.gov/gene/79646	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004873	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	POLR2B	http://www.ncbi.nlm.nih.gov/gene/5431	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004874	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	PPTC7	http://www.ncbi.nlm.nih.gov/gene/160760	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004875	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	PSMD11	http://www.ncbi.nlm.nih.gov/gene/5717	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004876	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	RAB11FIP1	http://www.ncbi.nlm.nih.gov/gene/80223	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004877	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	RAB11FIP2	http://www.ncbi.nlm.nih.gov/gene/22841	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004878	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	RCOR1	http://www.ncbi.nlm.nih.gov/gene/23186	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004879	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	RNF34	http://www.ncbi.nlm.nih.gov/gene/80196	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004880	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	RPL36A	http://www.ncbi.nlm.nih.gov/gene/284230	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004881	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	STARD4	http://www.ncbi.nlm.nih.gov/gene/134429	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004882	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	STOM	http://www.ncbi.nlm.nih.gov/gene/2040	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004883	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	TECPR1	http://www.ncbi.nlm.nih.gov/gene/25851	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004884	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	TUBGCP3	http://www.ncbi.nlm.nih.gov/gene/10426	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004885	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	UBR7	http://www.ncbi.nlm.nih.gov/gene/55148	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004886	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	UHMK1	http://www.ncbi.nlm.nih.gov/gene/127933	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004887	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	VKORC1L1	http://www.ncbi.nlm.nih.gov/gene/154807	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004888	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	XIAP	http://www.ncbi.nlm.nih.gov/gene/331	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004889	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	ZBTB34	http://www.ncbi.nlm.nih.gov/gene/403341	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004890	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	ZNF160	http://www.ncbi.nlm.nih.gov/gene/90338	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004891	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	ZNF268	http://www.ncbi.nlm.nih.gov/gene/10795	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004892	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	ZNF292	http://www.ncbi.nlm.nih.gov/gene/23036	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004893	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	ZNF526	http://www.ncbi.nlm.nih.gov/gene/116115	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00004894	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART4(ebv-mir-bart4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003726	Lymphoblastoid cell lines	-	Host	mRNA	ZNF770	http://www.ncbi.nlm.nih.gov/gene/54989	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00004895	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	nasopharyngeal carcinoma cells	-	Host	mRNA	BBC3( PUMA)	http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3074184/pdf/nihms266221.pdf	-	-	19158788	Depletion of miR-BART5 in EBV-infected nasopharyngeal carcinoma cells was found to trigger elevated levels of apoptosis mediated by PUMA, thus suggesting that miR-BART5 may act to shield EBV-infected epithelial cells, as well as EBV-transformed cells, from apoptotic elimination.
VHID00004896	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(BART-5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	-	-	Host	Protein	BBC3	http://www.ncbi.nlm.nih.gov/gene/27113	Downregulation	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets (Table 1).Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV- and EBV-encoded miRNAs.
VHID00004897	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	SEPT2		-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004898	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ACTL6A	http://www.ncbi.nlm.nih.gov/gene/86	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004899	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ADO	http://www.ncbi.nlm.nih.gov/gene/84890	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004900	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	AFF1	http://www.ncbi.nlm.nih.gov/gene/4299	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004901	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	AGFG1	http://www.ncbi.nlm.nih.gov/gene/3267	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004902	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	AGPAT1	http://www.ncbi.nlm.nih.gov/gene/10554	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004903	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ALKBH4	http://www.ncbi.nlm.nih.gov/gene/54784	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004904	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ANKRD17	http://www.ncbi.nlm.nih.gov/gene/26057	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004905	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ANLN	http://www.ncbi.nlm.nih.gov/gene/54443	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004906	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	AP4E1	http://www.ncbi.nlm.nih.gov/gene/23431	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004907	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ARF3	http://www.ncbi.nlm.nih.gov/gene/377	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004908	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ARHGAP5	http://www.ncbi.nlm.nih.gov/gene/394	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004909	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ARID4B	http://www.ncbi.nlm.nih.gov/gene/51742	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004910	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ARL15	http://www.ncbi.nlm.nih.gov/gene/54622	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004911	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ARMC8	http://www.ncbi.nlm.nih.gov/gene/25852	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004912	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ATM	http://www.ncbi.nlm.nih.gov/gene/472	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004913	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	BAG2	http://www.ncbi.nlm.nih.gov/gene/9532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004914	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	BBX	http://www.ncbi.nlm.nih.gov/gene/56987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004915	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	BLOC1S2	http://www.ncbi.nlm.nih.gov/gene/282991	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004916	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	BRWD1	http://www.ncbi.nlm.nih.gov/gene/54014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004917	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	BTBD1	http://www.ncbi.nlm.nih.gov/gene/53339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004918	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	BTF3L4	http://www.ncbi.nlm.nih.gov/gene/91408	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004919	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	BTG2	http://www.ncbi.nlm.nih.gov/gene/7832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004920	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	C17orf80	http://www.ncbi.nlm.nih.gov/gene/55028	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004921	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	C1orf21	http://www.ncbi.nlm.nih.gov/gene/81563	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004922	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	C2orf37	http://www.ncbi.nlm.nih.gov/gene/80067 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004923	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	C5orf51	http://www.ncbi.nlm.nih.gov/gene/285636	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004924	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	C8orf84	http://www.ncbi.nlm.nih.gov/gene/157869	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004925	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CA13	http://www.ncbi.nlm.nih.gov/gene/377677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004926	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CABC1	http://www.ncbi.nlm.nih.gov/gene/56997	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004927	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CAD	http://www.ncbi.nlm.nih.gov/gene/790	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004928	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CAMK2G	http://www.ncbi.nlm.nih.gov/gene/818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004929	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CARD8	http://www.ncbi.nlm.nih.gov/gene/22900	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004930	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CASP7	http://www.ncbi.nlm.nih.gov/gene/840	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004931	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CBX5	http://www.ncbi.nlm.nih.gov/gene/23468	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004932	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CCDC117	http://www.ncbi.nlm.nih.gov/gene/150275	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004933	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CCND2	http://www.ncbi.nlm.nih.gov/gene/894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004934	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CCNL1	http://www.ncbi.nlm.nih.gov/gene/57018	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004935	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CERK	http://www.ncbi.nlm.nih.gov/gene/64781	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004936	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CHD5	http://www.ncbi.nlm.nih.gov/gene/26038	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004937	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	COQ10B	http://www.ncbi.nlm.nih.gov/gene/80219	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004938	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CPSF7	http://www.ncbi.nlm.nih.gov/gene/79869	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004939	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CREBL2	http://www.ncbi.nlm.nih.gov/gene/1389	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004940	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CTNNA1	http://www.ncbi.nlm.nih.gov/gene/1495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004941	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CUGBP1	http://www.ncbi.nlm.nih.gov/gene/10658 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004942	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	CYorf15B	http://www.ncbi.nlm.nih.gov/gene/84663	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004943	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	DCLRE1C	http://www.ncbi.nlm.nih.gov/gene/64421	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004944	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	DCP1A	http://www.ncbi.nlm.nih.gov/gene/55802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004945	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	DISC1	http://www.ncbi.nlm.nih.gov/gene/27185	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004946	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	DOM3Z	http://www.ncbi.nlm.nih.gov/gene/1797	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004947	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	DVL3	http://www.ncbi.nlm.nih.gov/gene/1857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004948	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ELAVL1	http://www.ncbi.nlm.nih.gov/gene/1994	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004949	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ELK4	http://www.ncbi.nlm.nih.gov/gene/2005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004950	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ELMO2	http://www.ncbi.nlm.nih.gov/gene/63916	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004951	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	EP400	http://www.ncbi.nlm.nih.gov/gene/57634	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004952	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ERI1	http://www.ncbi.nlm.nih.gov/gene/90459	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004953	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ERO1L	http://www.ncbi.nlm.nih.gov/gene/30001	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004954	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ESCO2	http://www.ncbi.nlm.nih.gov/gene/157570	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004955	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	FAF2	http://www.ncbi.nlm.nih.gov/gene/23197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004956	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	FAM120C	http://www.ncbi.nlm.nih.gov/gene/54954	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004957	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	FAM160B1	http://www.ncbi.nlm.nih.gov/gene/57700	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004958	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	FAM82B	http://www.ncbi.nlm.nih.gov/gene/51115	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004959	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	FBXL3	http://www.ncbi.nlm.nih.gov/gene/26224	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004960	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	FBXO28	http://www.ncbi.nlm.nih.gov/gene/23219	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004961	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	FNDC3A	http://www.ncbi.nlm.nih.gov/gene/22862	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004962	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	FUSIP1	http://www.ncbi.nlm.nih.gov/gene/10772 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004963	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	GDI2	http://www.ncbi.nlm.nih.gov/gene/2665	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004964	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	GFOD1	http://www.ncbi.nlm.nih.gov/gene/54438	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004965	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	GIGYF1	http://www.ncbi.nlm.nih.gov/gene/64599	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004966	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	GIT2	http://www.ncbi.nlm.nih.gov/gene/9815	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004967	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	GLT8D3	http://www.ncbi.nlm.nih.gov/gene/283464 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004968	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	GNAI2	http://www.ncbi.nlm.nih.gov/gene/2771	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004969	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	GTF2A2	http://www.ncbi.nlm.nih.gov/gene/2958	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004970	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	HDX	http://www.ncbi.nlm.nih.gov/gene/139324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004971	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	HMGCS1	http://www.ncbi.nlm.nih.gov/gene/3157	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004972	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	HNRNPAB	http://www.ncbi.nlm.nih.gov/gene/3182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004973	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	HNRPLL	http://www.ncbi.nlm.nih.gov/gene/92906	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004974	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	HSPA4	http://www.ncbi.nlm.nih.gov/gene/3308	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004975	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	HUS1	http://www.ncbi.nlm.nih.gov/gene/3364	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004976	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	IFIH1	http://www.ncbi.nlm.nih.gov/gene/64135	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004977	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	IGF1R	http://www.ncbi.nlm.nih.gov/gene/3480	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004978	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	INO80D	http://www.ncbi.nlm.nih.gov/gene/54891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004979	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	IRF2	http://www.ncbi.nlm.nih.gov/gene/3660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004980	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	JMY	http://www.ncbi.nlm.nih.gov/gene/133746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004981	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	KCNJ2	http://www.ncbi.nlm.nih.gov/gene/3759	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004982	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	KDM2A	http://www.ncbi.nlm.nih.gov/gene/22992	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004983	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	KIAA0895	http://www.ncbi.nlm.nih.gov/gene/23366	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004984	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	KIAA1012	http://www.ncbi.nlm.nih.gov/gene/22878	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004985	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	KIAA1211	http://www.ncbi.nlm.nih.gov/gene/57482	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004986	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	KLHDC5	http://www.ncbi.nlm.nih.gov/gene/57542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004987	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	KLHL23	http://www.ncbi.nlm.nih.gov/gene/151230	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004988	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	KPNA4	http://www.ncbi.nlm.nih.gov/gene/3840	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004989	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	KPNA6	http://www.ncbi.nlm.nih.gov/gene/23633	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004990	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	LGALS1	http://www.ncbi.nlm.nih.gov/gene/3956	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004991	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	LRRC58	http://www.ncbi.nlm.nih.gov/gene/116064	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004992	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	M6PR	http://www.ncbi.nlm.nih.gov/gene/4074	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004993	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	MAGED2	http://www.ncbi.nlm.nih.gov/gene/10916	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004994	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	MAP3K1	http://www.ncbi.nlm.nih.gov/gene/4214	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004995	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	MAP3K2	http://www.ncbi.nlm.nih.gov/gene/10746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004996	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	MAP7D1	http://www.ncbi.nlm.nih.gov/gene/55700	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004997	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	MAPK1	http://www.ncbi.nlm.nih.gov/gene/5594	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004998	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	MBNL2	http://www.ncbi.nlm.nih.gov/gene/10150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00004999	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	MEF2A	http://www.ncbi.nlm.nih.gov/gene/4205	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005000	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	MFAP3	http://www.ncbi.nlm.nih.gov/gene/4238	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005001	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	MGA	http://www.ncbi.nlm.nih.gov/gene/23269	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005002	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	MIA3	http://www.ncbi.nlm.nih.gov/gene/375056	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005003	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	MLEC	http://www.ncbi.nlm.nih.gov/gene/9761	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005004	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	MLL5	http://www.ncbi.nlm.nih.gov/gene/55904	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005005	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	MOBKL1A	http://www.ncbi.nlm.nih.gov/gene/92597	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005006	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	MOBKL3	http://www.ncbi.nlm.nih.gov/gene/25843	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005007	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	MTPN	http://www.ncbi.nlm.nih.gov/gene/767558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005008	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	NCOA2	http://www.ncbi.nlm.nih.gov/gene/10499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005009	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	NOL12	http://www.ncbi.nlm.nih.gov/gene/79159	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005010	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	NP	http://www.ncbi.nlm.nih.gov/gene/4860 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005011	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	NUCKS1	http://www.ncbi.nlm.nih.gov/gene/64710	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005012	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	NUP160	http://www.ncbi.nlm.nih.gov/gene/23279	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005013	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ORMDL3	http://www.ncbi.nlm.nih.gov/gene/94103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005014	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	OSBPL11	http://www.ncbi.nlm.nih.gov/gene/114885	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005015	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	PAFAH1B1	http://www.ncbi.nlm.nih.gov/gene/5048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005016	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	PARD6B	http://www.ncbi.nlm.nih.gov/gene/84612	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005017	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	PDE4D	http://www.ncbi.nlm.nih.gov/gene/5144	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005018	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	PEX19	http://www.ncbi.nlm.nih.gov/gene/5824	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005019	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	PHC3	http://www.ncbi.nlm.nih.gov/gene/80012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005020	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	PHF20L1	http://www.ncbi.nlm.nih.gov/gene/51105	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005021	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	PHF8	http://www.ncbi.nlm.nih.gov/gene/23133	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005022	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	PIK3C2A	http://www.ncbi.nlm.nih.gov/gene/5286	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005023	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	PM20D2	http://www.ncbi.nlm.nih.gov/gene/135293	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005024	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	POLI	http://www.ncbi.nlm.nih.gov/gene/11201	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005025	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	PRKAR2A	http://www.ncbi.nlm.nih.gov/gene/5576	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005026	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	PTBP2	http://www.ncbi.nlm.nih.gov/gene/58155	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005027	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	PTEN	http://www.ncbi.nlm.nih.gov/gene/11191	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005028	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	PXMP3	http://www.ncbi.nlm.nih.gov/gene/5828 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005029	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	PXT1	http://www.ncbi.nlm.nih.gov/gene/222659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005030	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	RAB5A	http://www.ncbi.nlm.nih.gov/gene/5868	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005031	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	RAF1	http://www.ncbi.nlm.nih.gov/gene/5894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005032	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	RBM16	http://www.ncbi.nlm.nih.gov/gene/22828	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005033	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	RC3H2	http://www.ncbi.nlm.nih.gov/gene/54542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005034	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	REV1	http://www.ncbi.nlm.nih.gov/gene/51455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005035	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	REV3L	http://www.ncbi.nlm.nih.gov/gene/5980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005036	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	RGP1	http://www.ncbi.nlm.nih.gov/gene/9827	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005037	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	RHOQ	http://www.ncbi.nlm.nih.gov/gene/730041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005038	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	RNF181	http://www.ncbi.nlm.nih.gov/gene/51255	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005039	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	RNF38	http://www.ncbi.nlm.nih.gov/gene/152006	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005040	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005041	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	RREB1	http://www.ncbi.nlm.nih.gov/gene/6239	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005042	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	RRN3	http://www.ncbi.nlm.nih.gov/gene/54700	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005043	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	SAPS3	http://www.ncbi.nlm.nih.gov/gene/55291	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005044	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	SECISBP2L	http://www.ncbi.nlm.nih.gov/gene/9728	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005045	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	SETD2	http://www.ncbi.nlm.nih.gov/gene/29072	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005046	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	SETD5	http://www.ncbi.nlm.nih.gov/gene/55209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005047	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	SFRS18	http://www.ncbi.nlm.nih.gov/gene/25957	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005048	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	SH3BP2	http://www.ncbi.nlm.nih.gov/gene/6452	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005049	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	SHC1	http://www.ncbi.nlm.nih.gov/gene/6464	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005050	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	SKP1	http://www.ncbi.nlm.nih.gov/gene/6500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005051	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	SLC41A1	http://www.ncbi.nlm.nih.gov/gene/254428	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005052	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	SMAD3	http://www.ncbi.nlm.nih.gov/gene/4088	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005053	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	SMG7	http://www.ncbi.nlm.nih.gov/gene/9887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005054	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	SON	http://www.ncbi.nlm.nih.gov/gene/6651	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005055	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	SOX12	http://www.ncbi.nlm.nih.gov/gene/6666	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005056	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	STARD7	http://www.ncbi.nlm.nih.gov/gene/56910	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005057	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	STAT6	http://www.ncbi.nlm.nih.gov/gene/6778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005058	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	SUMO1	http://www.ncbi.nlm.nih.gov/gene/7341	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005059	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	TBL1XR1	http://www.ncbi.nlm.nih.gov/gene/79718	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005060	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	TMBIM1	http://www.ncbi.nlm.nih.gov/gene/64114	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005061	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	TNKS2	http://www.ncbi.nlm.nih.gov/gene/80351	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005062	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	TPRG1L	http://www.ncbi.nlm.nih.gov/gene/127262	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005063	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	TRAM2	http://www.ncbi.nlm.nih.gov/gene/9697	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005064	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	TSPYL1	http://www.ncbi.nlm.nih.gov/gene/7259	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005065	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	UBE2A	http://www.ncbi.nlm.nih.gov/gene/7319	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005066	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	UBL5	http://www.ncbi.nlm.nih.gov/gene/59286	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005067	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	UBQLN1	http://www.ncbi.nlm.nih.gov/gene/29979	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005068	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	UBXN7	http://www.ncbi.nlm.nih.gov/gene/26043	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005069	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	USP37	http://www.ncbi.nlm.nih.gov/gene/57695	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005070	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	VMA21	http://www.ncbi.nlm.nih.gov/gene/203547	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005071	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	VPS13A	http://www.ncbi.nlm.nih.gov/gene/23230	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005072	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	XIAP	http://www.ncbi.nlm.nih.gov/gene/331	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005073	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	XPNPEP1	http://www.ncbi.nlm.nih.gov/gene/7511	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005074	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	XRN1	http://www.ncbi.nlm.nih.gov/gene/54464	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005075	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	YPEL2	http://www.ncbi.nlm.nih.gov/gene/388403	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005076	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ZBTB47	http://www.ncbi.nlm.nih.gov/gene/92999	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005077	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ZC3HAV1	http://www.ncbi.nlm.nih.gov/gene/56829	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005078	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ZCCHC3	http://www.ncbi.nlm.nih.gov/gene/85364	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005079	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ZMYM6	http://www.ncbi.nlm.nih.gov/gene/100130633	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005080	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ZNF12	http://www.ncbi.nlm.nih.gov/gene/7559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005081	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ZNF160	http://www.ncbi.nlm.nih.gov/gene/90338	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005082	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ZNF264	http://www.ncbi.nlm.nih.gov/gene/9422	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005083	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ZNF28	http://www.ncbi.nlm.nih.gov/gene/7576	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005084	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ZNF295	http://www.ncbi.nlm.nih.gov/gene/49854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005085	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ZNF33A	http://www.ncbi.nlm.nih.gov/gene/7581	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005086	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ZNF367	http://www.ncbi.nlm.nih.gov/gene/195828	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005087	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ZNF451	http://www.ncbi.nlm.nih.gov/gene/26036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005088	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ZNF566	http://www.ncbi.nlm.nih.gov/gene/84924	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005089	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ZNF618	http://www.ncbi.nlm.nih.gov/gene/114991	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005090	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ZNF805	http://www.ncbi.nlm.nih.gov/gene/390980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005091	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(ebv-mir-bart5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	BC-1	-	Host	mRNA	ZRANB1	http://www.ncbi.nlm.nih.gov/gene/54764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005092	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(miR-BART5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	-	-	Host	Protein	BBC3	http://www.ncbi.nlm.nih.gov/gene/27113	-	Report arrays.	22100165	We detected the reported cluster, containing a seed match to miRBART16. We also detected an additional cluster with a seed match to miR-BART6-3p. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00005093	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(miR-BART5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	-	-	Host	Protein	PUMA	http://www.ncbi.nlm.nih.gov/gene/27113	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00005094	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(miR-BART5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	-	-	Host	mRNA	BBC3(PUMA)	http://www.ncbi.nlm.nih.gov/gene/27113	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VHID00005095	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(miR-BART5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	293T cells	-	Host	Protein	NFKB1	http://www.ncbi.nlm.nih.gov/gene/4790	Downregulation	luciferase reporter assays, photoactivatable cross-linking and immunoprecipitation(PAR-CLIP), and deep sequencing and qRT-PCR.	24257599	These data demonstrate that miR-rL1-8 can functionally substitute for miRBART5 and that miR-BART5 and miR-BART16 negatively regulate NFKB signaling by directly targeting the LMP1 3'UTR.
VHID00005096	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(miR-BART5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	B cells	-	Host	Protein	PUMA	http://www.ncbi.nlm.nih.gov/gene/27113	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	EBV miR-BART5 inhibits the expression of the cellular protein PUMA(p53 upregulated modulator of apoptosis) to promote host cell survival and the establishment of latent EBV in-fection.
VHID00005097	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(miR-BART5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	Nasopharyngeal carcinoma(NPC) and EBV-GC cells	-	Host	Protein	BBC3(PUMA)	http://www.ncbi.nlm.nih.gov/gene/27113	Downregulation	Reporter assay,Plasmid construction, Cell culture, transfection, Target prediction, RNA analysis, Western blotting, Apoptosis assays.	18838543	We report on the regulation of a cellular protein named p53 up-regulated modulator of apoptosis (PUMA) by an EBV miRNA known as miR-BART5, which is abundantly expressed in NPC and EBV-GC cells.
VHID00005098	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(mir-BART5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	B cell lymphomagenesis	-	Host	mRNA	PUMA	http://www.ncbi.nlm.nih.gov/gene/27113	Upregulation	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00005099	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART6(miR-BART6)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003728	-	-	Host	Protein	DICER	http://www.ncbi.nlm.nih.gov/gene/23405	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00005100	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART6(miR-BART6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003414	Nasopharyngeal epithelial tissues	-	Host	mRNA	DICER1(Dicer1)	http://www.ncbi.nlm.nih.gov/gene/23405	Downregulation	Luciferase assay.	23097559	It was previously reported that miR-BART6-5p RNAs encoded by EBV genome silence Dicer1 through multiple target sites located in the 3' UTR of Dicer1 mRNA.
VHID00005101	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART6(mir-BART6)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003728	B cell lymphomagenesis	-	Host	mRNA	DICER1	http://www.ncbi.nlm.nih.gov/gene/23405	Upregulation	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00005102	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SEPT7		-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005103	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ABTB2	http://www.ncbi.nlm.nih.gov/gene/25841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005104	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ANKFY1	http://www.ncbi.nlm.nih.gov/gene/51479	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005105	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ANKRD46	http://www.ncbi.nlm.nih.gov/gene/157567	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005106	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ANXA2	http://www.ncbi.nlm.nih.gov/gene/305	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005107	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	AP1S3	http://www.ncbi.nlm.nih.gov/gene/130340	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005108	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	APLP2	http://www.ncbi.nlm.nih.gov/gene/334	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005109	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	APPL1	http://www.ncbi.nlm.nih.gov/gene/26060	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005110	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ARID1B	http://www.ncbi.nlm.nih.gov/gene/57492	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005111	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ASB1	http://www.ncbi.nlm.nih.gov/gene/51665	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005112	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ATF7	http://www.ncbi.nlm.nih.gov/gene/11016	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005113	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ATG3	http://www.ncbi.nlm.nih.gov/gene/64422	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005114	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005115	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	BAZ1B	http://www.ncbi.nlm.nih.gov/gene/9031	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005116	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	BRWD2	http://www.ncbi.nlm.nih.gov/gene/55717 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005117	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	C10orf18	http://www.ncbi.nlm.nih.gov/gene/54906	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005118	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	C12orf5	http://www.ncbi.nlm.nih.gov/gene/57103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005119	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	C1orf55	http://www.ncbi.nlm.nih.gov/gene/163859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005120	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	C20orf177	http://www.ncbi.nlm.nih.gov/gene/63939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005121	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	C2orf60	http://www.ncbi.nlm.nih.gov/gene/129450	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005122	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	C4orf16	http://www.ncbi.nlm.nih.gov/gene/55435 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005123	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	C4orf46	http://www.ncbi.nlm.nih.gov/gene/201725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005124	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	C7orf60	http://www.ncbi.nlm.nih.gov/gene/154743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005125	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	C9orf41	http://www.ncbi.nlm.nih.gov/gene/138199	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005126	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	CA13	http://www.ncbi.nlm.nih.gov/gene/377677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005127	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	CAMSAP1L1	http://www.ncbi.nlm.nih.gov/gene/23271	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005128	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005129	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	CAV1	http://www.ncbi.nlm.nih.gov/gene/857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005130	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005131	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	CD200R1	http://www.ncbi.nlm.nih.gov/gene/131450	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005132	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	CENPQ	http://www.ncbi.nlm.nih.gov/gene/55166	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005133	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	CHKA	http://www.ncbi.nlm.nih.gov/gene/1119	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005134	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	CHUK	http://www.ncbi.nlm.nih.gov/gene/1147	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005135	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	CLCC1	http://www.ncbi.nlm.nih.gov/gene/23155	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005136	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	CLCN3	http://www.ncbi.nlm.nih.gov/gene/1182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005137	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	CPNE3	http://www.ncbi.nlm.nih.gov/gene/8895	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005138	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	CSDE1	http://www.ncbi.nlm.nih.gov/gene/7812	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005139	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	CTDSPL2	http://www.ncbi.nlm.nih.gov/gene/51496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005140	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	CTSL2	http://www.ncbi.nlm.nih.gov/gene/1515	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005141	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	DCP1A	http://www.ncbi.nlm.nih.gov/gene/55802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005142	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	DCTN4	http://www.ncbi.nlm.nih.gov/gene/51164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005143	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	DDHD2	http://www.ncbi.nlm.nih.gov/gene/23259	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005144	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	DERL1	http://www.ncbi.nlm.nih.gov/gene/79139	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005145	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	DHX33	http://www.ncbi.nlm.nih.gov/gene/56919	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005146	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	DOCK4	http://www.ncbi.nlm.nih.gov/gene/9732	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005147	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	DYRK1A	http://www.ncbi.nlm.nih.gov/gene/1859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005148	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	EIF2AK2	http://www.ncbi.nlm.nih.gov/gene/5610	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005149	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ELK4	http://www.ncbi.nlm.nih.gov/gene/2005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005150	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ERI1	http://www.ncbi.nlm.nih.gov/gene/90459	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005151	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	FAM105B	http://www.ncbi.nlm.nih.gov/gene/90268	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005152	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	FAM119A	http://www.ncbi.nlm.nih.gov/gene/151194	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005153	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	FAM160B1	http://www.ncbi.nlm.nih.gov/gene/57700	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005154	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	FAM33A	http://www.ncbi.nlm.nih.gov/gene/348235 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005155	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	FBXO22	http://www.ncbi.nlm.nih.gov/gene/26263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005156	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	FCF1	http://www.ncbi.nlm.nih.gov/gene/51077	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005157	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	FGD6	http://www.ncbi.nlm.nih.gov/gene/55785	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005158	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	FLOT1	http://www.ncbi.nlm.nih.gov/gene/10211	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005159	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	FOXP1	http://www.ncbi.nlm.nih.gov/gene/27086	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005160	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	FOXP2	http://www.ncbi.nlm.nih.gov/gene/93986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005161	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	FYTTD1	http://www.ncbi.nlm.nih.gov/gene/84248	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005162	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	G2E3	http://www.ncbi.nlm.nih.gov/gene/55632	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005163	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	GAB1	http://www.ncbi.nlm.nih.gov/gene/2549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005164	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	GARS	http://www.ncbi.nlm.nih.gov/gene/2617	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005165	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	GBF1	http://www.ncbi.nlm.nih.gov/gene/8729	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005166	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	GCET2	http://www.ncbi.nlm.nih.gov/gene/257144	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005167	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	GLO1	http://www.ncbi.nlm.nih.gov/gene/2739	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005168	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	GMNN	http://www.ncbi.nlm.nih.gov/gene/51053	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005169	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	GTPBP10	http://www.ncbi.nlm.nih.gov/gene/85865	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005170	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	HINT3	http://www.ncbi.nlm.nih.gov/gene/135114	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005171	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	HNRNPF	http://www.ncbi.nlm.nih.gov/gene/3185	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005172	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	HNRNPR	http://www.ncbi.nlm.nih.gov/gene/10236	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005173	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	HNRNPU	http://www.ncbi.nlm.nih.gov/gene/3192	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005174	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	HOXA1	http://www.ncbi.nlm.nih.gov/gene/3198	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005175	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	HPS3	http://www.ncbi.nlm.nih.gov/gene/84343	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005176	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	IARS2	http://www.ncbi.nlm.nih.gov/gene/55699	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005177	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	IGDCC4	http://www.ncbi.nlm.nih.gov/gene/57722	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005178	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ING3	http://www.ncbi.nlm.nih.gov/gene/54556	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005179	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	INPP4A	http://www.ncbi.nlm.nih.gov/gene/3631	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005180	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	JHDM1D	http://www.ncbi.nlm.nih.gov/gene/80853	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005181	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	KAT2B	http://www.ncbi.nlm.nih.gov/gene/8850	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005182	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	KIAA0232	http://www.ncbi.nlm.nih.gov/gene/9778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005183	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	KIAA0494	http://www.ncbi.nlm.nih.gov/gene/9813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005184	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	KLHL36	http://www.ncbi.nlm.nih.gov/gene/79786	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005185	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	LPHN3	http://www.ncbi.nlm.nih.gov/gene/23284	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005186	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	LRRC58	http://www.ncbi.nlm.nih.gov/gene/116064	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005187	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	LRRC8B	http://www.ncbi.nlm.nih.gov/gene/23507	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005188	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	MAML1	http://www.ncbi.nlm.nih.gov/gene/9794	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005189	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	MAPK1	http://www.ncbi.nlm.nih.gov/gene/5594	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005190	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	MBNL2	http://www.ncbi.nlm.nih.gov/gene/10150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005191	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	MCM2	http://www.ncbi.nlm.nih.gov/gene/4171	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005192	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	MEX3C	http://www.ncbi.nlm.nih.gov/gene/51320	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005193	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	MOBKL1A	http://www.ncbi.nlm.nih.gov/gene/92597	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005194	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	MTMR12	http://www.ncbi.nlm.nih.gov/gene/54545	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005195	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	MYPOP	http://www.ncbi.nlm.nih.gov/gene/339344	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005196	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	NCOA2	http://www.ncbi.nlm.nih.gov/gene/10499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005197	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	NDUFS3	http://www.ncbi.nlm.nih.gov/gene/4722	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005198	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	NEDD1	http://www.ncbi.nlm.nih.gov/gene/121441	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005199	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	NEK7	http://www.ncbi.nlm.nih.gov/gene/140609	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005200	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	NIP7	http://www.ncbi.nlm.nih.gov/gene/51388	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005201	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	NOTCH2	http://www.ncbi.nlm.nih.gov/gene/4853	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005202	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	NUDT15	http://www.ncbi.nlm.nih.gov/gene/55270	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005203	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	NUPL1	http://www.ncbi.nlm.nih.gov/gene/9818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005204	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PAK2	http://www.ncbi.nlm.nih.gov/gene/5062	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005205	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PATZ1	http://www.ncbi.nlm.nih.gov/gene/23598	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005206	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PDZD8	http://www.ncbi.nlm.nih.gov/gene/118987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005207	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PECR	http://www.ncbi.nlm.nih.gov/gene/55825	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005208	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PIK3CB	http://www.ncbi.nlm.nih.gov/gene/5291	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005209	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PLAGL1	http://www.ncbi.nlm.nih.gov/gene/5325	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005210	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PLCL1	http://www.ncbi.nlm.nih.gov/gene/5334	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005211	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	POLR1B	http://www.ncbi.nlm.nih.gov/gene/84172	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005212	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	POU2F2	http://www.ncbi.nlm.nih.gov/gene/5452	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005213	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PPAP2B	http://www.ncbi.nlm.nih.gov/gene/8613	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005214	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PPP1R1C	http://www.ncbi.nlm.nih.gov/gene/151242	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005215	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PPP2R5A	http://www.ncbi.nlm.nih.gov/gene/5525	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005216	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PPP3CB	http://www.ncbi.nlm.nih.gov/gene/5532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005217	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PPP6C	http://www.ncbi.nlm.nih.gov/gene/5537	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005218	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PPTC7	http://www.ncbi.nlm.nih.gov/gene/160760	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005219	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PRKAB2	http://www.ncbi.nlm.nih.gov/gene/5565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005220	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PRKACB	http://www.ncbi.nlm.nih.gov/gene/5567	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005221	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PTPN13	http://www.ncbi.nlm.nih.gov/gene/5783	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005222	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	PTPRC	http://www.ncbi.nlm.nih.gov/gene/5788	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005223	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	RAB22A	http://www.ncbi.nlm.nih.gov/gene/57403	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005224	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	RASGRP3	http://www.ncbi.nlm.nih.gov/gene/25780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005225	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	RCSD1	http://www.ncbi.nlm.nih.gov/gene/92241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005226	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	REST	http://www.ncbi.nlm.nih.gov/gene/5978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005227	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	RHOA	http://www.ncbi.nlm.nih.gov/gene/387	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005228	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	RNF125	http://www.ncbi.nlm.nih.gov/gene/54941	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005229	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	RNF141	http://www.ncbi.nlm.nih.gov/gene/50862	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005230	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	RNF19A	http://www.ncbi.nlm.nih.gov/gene/25897	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005231	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005232	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	RPL5	http://www.ncbi.nlm.nih.gov/gene/647436	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005233	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SCFD1	http://www.ncbi.nlm.nih.gov/gene/23256	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005234	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SDCCAG1	http://www.ncbi.nlm.nih.gov/gene/9147	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005235	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SERAC1	http://www.ncbi.nlm.nih.gov/gene/84947	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005236	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SERINC3	http://www.ncbi.nlm.nih.gov/gene/10955	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005237	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SETD7	http://www.ncbi.nlm.nih.gov/gene/80854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005238	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SFMBT2	http://www.ncbi.nlm.nih.gov/gene/57713	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005239	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SFPQ	http://www.ncbi.nlm.nih.gov/gene/6421	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005240	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SHOC2	http://www.ncbi.nlm.nih.gov/gene/8036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005241	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SKIV2L	http://www.ncbi.nlm.nih.gov/gene/6499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005242	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SLAIN2	http://www.ncbi.nlm.nih.gov/gene/57606	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005243	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SLC16A4	http://www.ncbi.nlm.nih.gov/gene/9122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005244	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SLC35F2	http://www.ncbi.nlm.nih.gov/gene/54733	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005245	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SLC38A2	http://www.ncbi.nlm.nih.gov/gene/54407	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005246	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SMG7	http://www.ncbi.nlm.nih.gov/gene/9887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005247	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SNX18	http://www.ncbi.nlm.nih.gov/gene/112574	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005248	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SNX27	http://www.ncbi.nlm.nih.gov/gene/81609	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005249	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SOCS6	http://www.ncbi.nlm.nih.gov/gene/9306	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005250	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SRP72	http://www.ncbi.nlm.nih.gov/gene/6731	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005251	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	STK38L	http://www.ncbi.nlm.nih.gov/gene/23012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005252	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	STYX	http://www.ncbi.nlm.nih.gov/gene/6815	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005253	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	SYNJ1	http://www.ncbi.nlm.nih.gov/gene/8867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005254	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	TAF2	http://www.ncbi.nlm.nih.gov/gene/6873	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005255	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	TAOK1	http://www.ncbi.nlm.nih.gov/gene/57551	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005256	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	TBL1XR1	http://www.ncbi.nlm.nih.gov/gene/79718	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005257	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	TET2	http://www.ncbi.nlm.nih.gov/gene/54790	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005258	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	TET3	http://www.ncbi.nlm.nih.gov/gene/200424	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005259	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	TFAM	http://www.ncbi.nlm.nih.gov/gene/7019	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005260	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	THAP1	http://www.ncbi.nlm.nih.gov/gene/55145	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005261	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	THOC7	http://www.ncbi.nlm.nih.gov/gene/80145	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005262	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	TIFA	http://www.ncbi.nlm.nih.gov/gene/92610	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005263	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	TLK1	http://www.ncbi.nlm.nih.gov/gene/9874	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005264	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	TM7SF3	http://www.ncbi.nlm.nih.gov/gene/51768	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005265	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	TMCC1	http://www.ncbi.nlm.nih.gov/gene/23023	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005266	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	TMEM19	http://www.ncbi.nlm.nih.gov/gene/55266	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005267	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	TMEM209	http://www.ncbi.nlm.nih.gov/gene/84928	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005268	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	TMEM55A	http://www.ncbi.nlm.nih.gov/gene/55529	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005269	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	TNFRSF10B	http://www.ncbi.nlm.nih.gov/gene/8795	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005270	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	UBA6	http://www.ncbi.nlm.nih.gov/gene/55236	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005271	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	UBE2K	http://www.ncbi.nlm.nih.gov/gene/3093	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005272	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	UBR7	http://www.ncbi.nlm.nih.gov/gene/55148	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005273	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	UBTD2	http://www.ncbi.nlm.nih.gov/gene/92181	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005274	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	UBXN7	http://www.ncbi.nlm.nih.gov/gene/26043	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005275	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	UHMK1	http://www.ncbi.nlm.nih.gov/gene/127933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005276	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	USP15	http://www.ncbi.nlm.nih.gov/gene/9958	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005277	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	USP47	http://www.ncbi.nlm.nih.gov/gene/55031	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005278	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	VBP1	http://www.ncbi.nlm.nih.gov/gene/7411	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005279	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	VPS26A	http://www.ncbi.nlm.nih.gov/gene/9559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005280	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	XPO1	http://www.ncbi.nlm.nih.gov/gene/7514	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005281	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	YEATS4	http://www.ncbi.nlm.nih.gov/gene/8089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005282	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	YWHAG	http://www.ncbi.nlm.nih.gov/gene/7532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005283	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ZBTB1	http://www.ncbi.nlm.nih.gov/gene/22890	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005284	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ZCCHC7	http://www.ncbi.nlm.nih.gov/gene/84186	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005285	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ZMAT3	http://www.ncbi.nlm.nih.gov/gene/64393	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005286	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ZNF180	http://www.ncbi.nlm.nih.gov/gene/7733	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005287	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ZNF217	http://www.ncbi.nlm.nih.gov/gene/7764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005288	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ZNF24	http://www.ncbi.nlm.nih.gov/gene/7572	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005289	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ZNF460	http://www.ncbi.nlm.nih.gov/gene/10794	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005290	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ZNF493	http://www.ncbi.nlm.nih.gov/gene/284443	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005291	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ZNF528	http://www.ncbi.nlm.nih.gov/gene/147658	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005292	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ZNF585B	http://www.ncbi.nlm.nih.gov/gene/92285	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005293	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ZNF714	http://www.ncbi.nlm.nih.gov/gene/148206	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005294	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ZNF791	http://www.ncbi.nlm.nih.gov/gene/163049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005295	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ZNF800	http://www.ncbi.nlm.nih.gov/gene/168850	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005296	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART7(ebv-mir-bart7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003729	BC-1	-	Host	mRNA	ZNF805	http://www.ncbi.nlm.nih.gov/gene/390980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005297	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	ACTR1A	http://www.ncbi.nlm.nih.gov/gene/10121	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005298	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	ARID2	http://www.ncbi.nlm.nih.gov/gene/196528	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005299	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	C13orf23	http://www.ncbi.nlm.nih.gov/gene/80209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005300	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	C14orf129	http://www.ncbi.nlm.nih.gov/gene/51527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005301	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	CCND2	http://www.ncbi.nlm.nih.gov/gene/894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005302	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	DENND1B	http://www.ncbi.nlm.nih.gov/gene/163486	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005303	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	DOLPP1	http://www.ncbi.nlm.nih.gov/gene/57171	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005304	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	DTX3L	http://www.ncbi.nlm.nih.gov/gene/151636	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005305	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	FBXO10	http://www.ncbi.nlm.nih.gov/gene/26267	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005306	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	FTSJ3	http://www.ncbi.nlm.nih.gov/gene/117246	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005307	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	FUBP3	http://www.ncbi.nlm.nih.gov/gene/8939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005308	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	GNB1	http://www.ncbi.nlm.nih.gov/gene/2782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005309	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	INPP5E	http://www.ncbi.nlm.nih.gov/gene/56623	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005310	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	KIAA0528	http://www.ncbi.nlm.nih.gov/gene/9847	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005311	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	KPNA3	http://www.ncbi.nlm.nih.gov/gene/3839	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005312	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	LARP4	http://www.ncbi.nlm.nih.gov/gene/113251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005313	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	LIN28B	http://www.ncbi.nlm.nih.gov/gene/389421	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005314	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	NCOR1	http://www.ncbi.nlm.nih.gov/gene/9611	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005315	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	NF1	http://www.ncbi.nlm.nih.gov/gene/4763	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005316	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	NFIA	http://www.ncbi.nlm.nih.gov/gene/4774	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005317	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	NOS3	http://www.ncbi.nlm.nih.gov/gene/4846	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005318	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	PCTK2	http://www.ncbi.nlm.nih.gov/gene/5128 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005319	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	PHF12	http://www.ncbi.nlm.nih.gov/gene/57649	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005320	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	PKN2	http://www.ncbi.nlm.nih.gov/gene/5586	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005321	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	PSMC3IP	http://www.ncbi.nlm.nih.gov/gene/29893	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005322	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	PURB	http://www.ncbi.nlm.nih.gov/gene/5814	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005323	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	RALBP1	http://www.ncbi.nlm.nih.gov/gene/10928	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005324	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	RPL15	http://www.ncbi.nlm.nih.gov/gene/6138	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005325	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	RPS6KA3	http://www.ncbi.nlm.nih.gov/gene/6197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005326	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	RTN4	http://www.ncbi.nlm.nih.gov/gene/57142	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005327	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	RWDD4A	http://www.ncbi.nlm.nih.gov/gene/201965	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005328	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	SEC11B	http://www.ncbi.nlm.nih.gov/gene/157708	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005329	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	SLC11A2	http://www.ncbi.nlm.nih.gov/gene/4891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005330	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	SLC39A14	http://www.ncbi.nlm.nih.gov/gene/23516	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005331	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	SRGAP2	http://www.ncbi.nlm.nih.gov/gene/23380	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005332	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	SSR3	http://www.ncbi.nlm.nih.gov/gene/6747	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005333	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	STAG1	http://www.ncbi.nlm.nih.gov/gene/10274	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005334	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	STXBP4	http://www.ncbi.nlm.nih.gov/gene/252983	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005335	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	TET2	http://www.ncbi.nlm.nih.gov/gene/54790	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005336	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	TMEM111	http://www.ncbi.nlm.nih.gov/gene/55831	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005337	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	TMEM170A	http://www.ncbi.nlm.nih.gov/gene/124491	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005338	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	TMEM2	http://www.ncbi.nlm.nih.gov/gene/23670	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005339	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	TRIB1	http://www.ncbi.nlm.nih.gov/gene/10221	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005340	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	ZBED4	http://www.ncbi.nlm.nih.gov/gene/9889	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005341	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART8(ebv-mir-bart8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003730	BC-1	-	Host	mRNA	ZBTB10	http://www.ncbi.nlm.nih.gov/gene/65986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005342	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	ADRB1	http://www.ncbi.nlm.nih.gov/gene/153	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005343	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	ASH1L	http://www.ncbi.nlm.nih.gov/gene/55870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005344	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	BAK1	http://www.ncbi.nlm.nih.gov/gene/578	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005345	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	BNC2	http://www.ncbi.nlm.nih.gov/gene/54796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005346	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	BRMS1L	http://www.ncbi.nlm.nih.gov/gene/84312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005347	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	C12orf35	http://www.ncbi.nlm.nih.gov/gene/55196	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005348	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	C19orf42	http://www.ncbi.nlm.nih.gov/gene/79086	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005349	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	C2orf18	http://www.ncbi.nlm.nih.gov/gene/54978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005350	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	C5orf51	http://www.ncbi.nlm.nih.gov/gene/285636	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005351	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	C7orf70	http://www.ncbi.nlm.nih.gov/gene/84792	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005352	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	CBX1	http://www.ncbi.nlm.nih.gov/gene/10951	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005353	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005354	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	CD86	http://www.ncbi.nlm.nih.gov/gene/942	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005355	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	CDC42	http://www.ncbi.nlm.nih.gov/gene/998	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005356	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	CDK6	http://www.ncbi.nlm.nih.gov/gene/1021	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005357	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	CHPT1	http://www.ncbi.nlm.nih.gov/gene/56994	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005358	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	CLPX	http://www.ncbi.nlm.nih.gov/gene/10845	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005359	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	CMPK1	http://www.ncbi.nlm.nih.gov/gene/51727	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005360	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	CMTM6	http://www.ncbi.nlm.nih.gov/gene/54918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005361	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	CPEB3	http://www.ncbi.nlm.nih.gov/gene/22849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005362	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	CREBZF	http://www.ncbi.nlm.nih.gov/gene/58487	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005363	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	CUX1	http://www.ncbi.nlm.nih.gov/gene/1523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005364	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	DDI2	http://www.ncbi.nlm.nih.gov/gene/84301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005365	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	DDX19A	http://www.ncbi.nlm.nih.gov/gene/55308	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005366	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	DERL1	http://www.ncbi.nlm.nih.gov/gene/79139	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005367	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	DMTF1	http://www.ncbi.nlm.nih.gov/gene/9988	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005368	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	DYRK1A	http://www.ncbi.nlm.nih.gov/gene/1859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005369	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	EIF3L	http://www.ncbi.nlm.nih.gov/gene/51386	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005370	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	EIF5	http://www.ncbi.nlm.nih.gov/gene/1983	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005371	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	EZH1	http://www.ncbi.nlm.nih.gov/gene/2145	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005372	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	FLI1	http://www.ncbi.nlm.nih.gov/gene/2313	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005373	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	FOXO3	http://www.ncbi.nlm.nih.gov/gene/2310	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005374	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	H2AFZ	http://www.ncbi.nlm.nih.gov/gene/3015	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005375	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	HNRPDL	http://www.ncbi.nlm.nih.gov/gene/9987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005376	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	HS3ST3B1	http://www.ncbi.nlm.nih.gov/gene/9953	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005377	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	KCTD3	http://www.ncbi.nlm.nih.gov/gene/51133	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005378	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	KDELR2	http://www.ncbi.nlm.nih.gov/gene/11014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005379	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	KIAA1211	http://www.ncbi.nlm.nih.gov/gene/57482	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005380	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	KIAA1430	http://www.ncbi.nlm.nih.gov/gene/57587	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005381	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	KIAA2018	http://www.ncbi.nlm.nih.gov/gene/205717	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005382	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	KRCC1	http://www.ncbi.nlm.nih.gov/gene/51315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005383	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	KRT10	http://www.ncbi.nlm.nih.gov/gene/3858	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005384	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	LARP4	http://www.ncbi.nlm.nih.gov/gene/113251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005385	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	LENG4	http://www.ncbi.nlm.nih.gov/gene/79143 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005386	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	LGR4	http://www.ncbi.nlm.nih.gov/gene/55366	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005387	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	LIMA1	http://www.ncbi.nlm.nih.gov/gene/51474	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005388	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	LZIC	http://www.ncbi.nlm.nih.gov/gene/84328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005389	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	MALT1	http://www.ncbi.nlm.nih.gov/gene/10892	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005390	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	MBNL1	http://www.ncbi.nlm.nih.gov/gene/4154	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005391	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	MCL1	http://www.ncbi.nlm.nih.gov/gene/4170	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005392	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	MORC3	http://www.ncbi.nlm.nih.gov/gene/23515	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005393	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	MTF2	http://www.ncbi.nlm.nih.gov/gene/22823	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005394	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	MUTED	http://www.ncbi.nlm.nih.gov/gene/81567	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005395	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	PAFAH1B2	http://www.ncbi.nlm.nih.gov/gene/5049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005396	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	PCDHB2	http://www.ncbi.nlm.nih.gov/gene/56133	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005397	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	PDIK1L	http://www.ncbi.nlm.nih.gov/gene/149420	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005398	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	PIKFYVE	http://www.ncbi.nlm.nih.gov/gene/200576	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005399	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	PPM1A	http://www.ncbi.nlm.nih.gov/gene/5494	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005400	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	PYCR2	http://www.ncbi.nlm.nih.gov/gene/29920	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005401	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	RAB3GAP2	http://www.ncbi.nlm.nih.gov/gene/25782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005402	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	RABGEF1	http://www.ncbi.nlm.nih.gov/gene/27342	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005403	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	RBM12	http://www.ncbi.nlm.nih.gov/gene/10137	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005404	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005405	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	RRP15	http://www.ncbi.nlm.nih.gov/gene/51018	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005406	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	SIX4	http://www.ncbi.nlm.nih.gov/gene/51804	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005407	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	SLC35D1	http://www.ncbi.nlm.nih.gov/gene/23169	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005408	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	SLC38A1	http://www.ncbi.nlm.nih.gov/gene/81539	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005409	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	SMC5	http://www.ncbi.nlm.nih.gov/gene/23137	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005410	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	SNX18	http://www.ncbi.nlm.nih.gov/gene/112574	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005411	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	SPN	http://www.ncbi.nlm.nih.gov/gene/6693	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005412	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	SPRED1	http://www.ncbi.nlm.nih.gov/gene/161742	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005413	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	ST13	http://www.ncbi.nlm.nih.gov/gene/344328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005414	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	STMN1	http://www.ncbi.nlm.nih.gov/gene/3925	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005415	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	TBP	http://www.ncbi.nlm.nih.gov/gene/6908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005416	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	TET1	http://www.ncbi.nlm.nih.gov/gene/80312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005417	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	TNRC6B	http://www.ncbi.nlm.nih.gov/gene/23112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005418	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	TOMM20	http://www.ncbi.nlm.nih.gov/gene/100129272	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005419	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	TRUB1	http://www.ncbi.nlm.nih.gov/gene/142940	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005420	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	TSPYL1	http://www.ncbi.nlm.nih.gov/gene/7259	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005421	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	UBE2Z	http://www.ncbi.nlm.nih.gov/gene/65264	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005422	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	UBXN4	http://www.ncbi.nlm.nih.gov/gene/23190	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005423	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	VAMP3	http://www.ncbi.nlm.nih.gov/gene/9341	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005424	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	VEZT	http://www.ncbi.nlm.nih.gov/gene/55591	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005425	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	VPS37C	http://www.ncbi.nlm.nih.gov/gene/55048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005426	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	WWTR1	http://www.ncbi.nlm.nih.gov/gene/25937	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005427	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	XPO4	http://www.ncbi.nlm.nih.gov/gene/64328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005428	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	ZBTB34	http://www.ncbi.nlm.nih.gov/gene/403341	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005429	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	ZBTB39	http://www.ncbi.nlm.nih.gov/gene/9880	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005430	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	ZCCHC3	http://www.ncbi.nlm.nih.gov/gene/85364	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005431	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	ZEB2	http://www.ncbi.nlm.nih.gov/gene/9839	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005432	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	ZNF217	http://www.ncbi.nlm.nih.gov/gene/7764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005433	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	ZNF395	http://www.ncbi.nlm.nih.gov/gene/55893	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005434	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	ZNF462	http://www.ncbi.nlm.nih.gov/gene/58499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005435	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	ZNF521	http://www.ncbi.nlm.nih.gov/gene/25925	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005436	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(ebv-mir-bart9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	BC-1	-	Host	mRNA	ZNF621	http://www.ncbi.nlm.nih.gov/gene/285268	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005437	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(miR-BART9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	epithelial cell lines	-	Host	Protein	BCL2L11(BimEL)	http://www.ncbi.nlm.nih.gov/gene/396632	Downregulation	Northern Blot analysis and quantitative RT-PCR, Western Blot analysis, Microarray analysis, ciferase Assays.	21333317	Analysis of the BimEL protein levels in cells expressing the miRNAs revealed that its expression was affected by several of the individual miRNAs with cell lines expressing miR-BART1, 3, 9, 11 and 12 all having decreased BimEL levels (Figure 6B and C).
VHID00005438	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(miR-BART9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	epithelial cell lines	-	Host	mRNA	BCL2L11(BIM)	http://www.ncbi.nlm.nih.gov/gene/396632	Downregulation	Northern Blot analysis and quantitative RT-PCR, Western Blot analysis, Microarray analysis, ciferase Assays.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00005439	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(miR-BART9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	nasopharyngeal carcinoma (NPC) cells	-	Host	Protein	CDH1	http://www.ncbi.nlm.nih.gov/gene/999	Downregulation	Quantitative RT-PCR, Dual luciferase reporter assay,Western blotting,Immunofluorescence,Immunohistochemistry.	24586173	Through biochemical assays and functional rescue analysis, we confirmed that miR-BART9 specifically inhibits E-cadherin to induce a mesenchymal-like phenotype and promote the migration of NPC cells.A previous sequencing study by our group revealed that the EBV miRNA miR-BART9 was expressed at high levels in all EBV-positive NPC tissues.In vivo, we observed that miR-BART9 promoted the metastatic activity of NPC cells in a spontaneous metastasis mouse model. Through bioinformatics analysis and functional verification, we demonstrated that miR-BART9 directly repressed E-cadherin (CDH1).
VHID00005440	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(BHRF1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	-	-	Host	Protein	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.
VHID00005441	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(BHRF1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	-	-	Host	Protein	GUF1	http://www.ncbi.nlm.nih.gov/gene/60558	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.
VHID00005442	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(BHRF1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	-	-	Host	Protein	NAA30	http://www.ncbi.nlm.nih.gov/gene/122830	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.
VHID00005443	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(BHRF1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	-	-	Host	Protein	SCRN1	http://www.ncbi.nlm.nih.gov/gene/9805	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.
VHID00005444	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(BHRF1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	-	-	Host	Protein	TP53	http://www.ncbi.nlm.nih.gov/gene/7157	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets (Table 1).Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV- and EBV-encoded miRNAs.
VHID00005445	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	AKT2	http://www.ncbi.nlm.nih.gov/gene/208	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005446	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	ANKRA2	http://www.ncbi.nlm.nih.gov/gene/57763	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005447	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	ANKRD12	http://www.ncbi.nlm.nih.gov/gene/23253	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005448	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	ANKRD27	http://www.ncbi.nlm.nih.gov/gene/84079	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005449	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	AP1S1	http://www.ncbi.nlm.nih.gov/gene/1174	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005450	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	ARHGEF18	http://www.ncbi.nlm.nih.gov/gene/23370	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005451	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	ASH1L	http://www.ncbi.nlm.nih.gov/gene/55870	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005452	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	ATG10	http://www.ncbi.nlm.nih.gov/gene/83734	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005453	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	ATP11B	http://www.ncbi.nlm.nih.gov/gene/23200	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005454	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	ATP1B1	http://www.ncbi.nlm.nih.gov/gene/481	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005455	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	B2M	http://www.ncbi.nlm.nih.gov/gene/567	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005456	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	BAG5	http://www.ncbi.nlm.nih.gov/gene/9529	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005457	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	C4orf32	http://www.ncbi.nlm.nih.gov/gene/132720	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005458	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	C6orf211	http://www.ncbi.nlm.nih.gov/gene/79624	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005459	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	C6orf61	http://www.ncbi.nlm.nih.gov/gene/254394	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005460	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	C6orf89	http://www.ncbi.nlm.nih.gov/gene/221477	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005461	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	CCDC6	http://www.ncbi.nlm.nih.gov/gene/8030	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005462	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	CDC2	http://www.ncbi.nlm.nih.gov/gene/983 	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005463	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	CDC73	http://www.ncbi.nlm.nih.gov/gene/79577	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005464	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	CDK2	http://www.ncbi.nlm.nih.gov/gene/1017	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005465	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	CLOCK	http://www.ncbi.nlm.nih.gov/gene/9575	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005466	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	CPD	http://www.ncbi.nlm.nih.gov/gene/1362	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005467	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	CPSF7	http://www.ncbi.nlm.nih.gov/gene/79869	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005468	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	CREB3L2	http://www.ncbi.nlm.nih.gov/gene/64764	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005469	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	CSNK1G3	http://www.ncbi.nlm.nih.gov/gene/1456	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005470	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	DAZAP1	http://www.ncbi.nlm.nih.gov/gene/26528	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005471	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	DDX17	http://www.ncbi.nlm.nih.gov/gene/10521	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005472	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	DEXI	http://www.ncbi.nlm.nih.gov/gene/28955	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005473	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	DPM1	http://www.ncbi.nlm.nih.gov/gene/8813	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005474	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	EIF2S3	http://www.ncbi.nlm.nih.gov/gene/1968	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005475	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	ELF1	http://www.ncbi.nlm.nih.gov/gene/1997	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005476	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	EPSTI1	http://www.ncbi.nlm.nih.gov/gene/94240	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005477	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	FAM105B	http://www.ncbi.nlm.nih.gov/gene/90268	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005478	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	FAM175B	http://www.ncbi.nlm.nih.gov/gene/23172	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005479	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	FBXO34	http://www.ncbi.nlm.nih.gov/gene/55030	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005480	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	G3BP1	http://www.ncbi.nlm.nih.gov/gene/10146	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005481	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	GPD2	http://www.ncbi.nlm.nih.gov/gene/2820	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005482	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	GUF1	http://www.ncbi.nlm.nih.gov/gene/60558	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005483	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	HEY1	http://www.ncbi.nlm.nih.gov/gene/23462	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005484	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	HIVEP1	http://www.ncbi.nlm.nih.gov/gene/3096	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005485	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	HMG20A	http://www.ncbi.nlm.nih.gov/gene/10363	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005486	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	HUWE1	http://www.ncbi.nlm.nih.gov/gene/10075	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005487	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	IFNGR2	http://www.ncbi.nlm.nih.gov/gene/3460	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005488	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	IGJ	http://www.ncbi.nlm.nih.gov/gene/3512	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005489	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	KDM5C	http://www.ncbi.nlm.nih.gov/gene/8242	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005490	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	KMT2D(MLL2)		-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005491	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	MAGED1	http://www.ncbi.nlm.nih.gov/gene/9500	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005492	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	MMD	http://www.ncbi.nlm.nih.gov/gene/23531	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005493	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	NASP	http://www.ncbi.nlm.nih.gov/gene/4678	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005494	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	NAT12	http://www.ncbi.nlm.nih.gov/gene/122830 	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005495	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	NAV2	http://www.ncbi.nlm.nih.gov/gene/89797	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005496	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	NKRF	http://www.ncbi.nlm.nih.gov/gene/55922	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005497	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	NSD1	http://www.ncbi.nlm.nih.gov/gene/64324	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005498	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	NUSAP1	http://www.ncbi.nlm.nih.gov/gene/51203	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005499	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	PAPOLA	http://www.ncbi.nlm.nih.gov/gene/10914	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005500	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	PEX26	http://www.ncbi.nlm.nih.gov/gene/55670	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005501	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	PHC3	http://www.ncbi.nlm.nih.gov/gene/80012	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005502	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	PHF20	http://www.ncbi.nlm.nih.gov/gene/51230	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005503	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	PIAS4	http://www.ncbi.nlm.nih.gov/gene/51588	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005504	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	PLAGL2	http://www.ncbi.nlm.nih.gov/gene/5326	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005505	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	POLR2B	http://www.ncbi.nlm.nih.gov/gene/5431	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005506	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	PSMD11	http://www.ncbi.nlm.nih.gov/gene/5717	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005507	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	PSMD13	http://www.ncbi.nlm.nih.gov/gene/5719	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005508	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	PTAR1	http://www.ncbi.nlm.nih.gov/gene/375743	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005509	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	RAB11FIP2	http://www.ncbi.nlm.nih.gov/gene/22841	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005510	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	RBPSUH	http://www.ncbi.nlm.nih.gov/gene/3516	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005511	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	RERE	http://www.ncbi.nlm.nih.gov/gene/473	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005512	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	RFX7	http://www.ncbi.nlm.nih.gov/gene/64864	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005513	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	RNF19A	http://www.ncbi.nlm.nih.gov/gene/25897	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005514	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	SCRN1	http://www.ncbi.nlm.nih.gov/gene/9805	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005515	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	SNRPD3	http://www.ncbi.nlm.nih.gov/gene/6634	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005516	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	SPTY2D1	http://www.ncbi.nlm.nih.gov/gene/144108	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005517	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	STAG2	http://www.ncbi.nlm.nih.gov/gene/10735	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005518	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	STARD4	http://www.ncbi.nlm.nih.gov/gene/134429	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005519	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	STARD7	http://www.ncbi.nlm.nih.gov/gene/56910	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005520	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	STOM	http://www.ncbi.nlm.nih.gov/gene/2040	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005521	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	SYPL1	http://www.ncbi.nlm.nih.gov/gene/6856	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005522	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	TADA2L	http://www.ncbi.nlm.nih.gov/gene/6871 	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005523	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	TCERG1	http://www.ncbi.nlm.nih.gov/gene/10915	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005524	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	TECPR1	http://www.ncbi.nlm.nih.gov/gene/25851	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005525	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	TFRC	http://www.ncbi.nlm.nih.gov/gene/7037	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005526	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	TMOD2	http://www.ncbi.nlm.nih.gov/gene/29767	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005527	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	TOPORS	http://www.ncbi.nlm.nih.gov/gene/10210	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005528	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	TOX4	http://www.ncbi.nlm.nih.gov/gene/9878	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005529	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	TRERF1	http://www.ncbi.nlm.nih.gov/gene/55809	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005530	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	TRIM23	http://www.ncbi.nlm.nih.gov/gene/373	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005531	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	UBR7	http://www.ncbi.nlm.nih.gov/gene/55148	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005532	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	UHMK1	http://www.ncbi.nlm.nih.gov/gene/127933	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005533	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	VPS4B	http://www.ncbi.nlm.nih.gov/gene/9525	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005534	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	VRK1	http://www.ncbi.nlm.nih.gov/gene/7443	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005535	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	WNK1	http://www.ncbi.nlm.nih.gov/gene/65125	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005536	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	ZBED4	http://www.ncbi.nlm.nih.gov/gene/9889	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005537	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	ZKSCAN5	http://www.ncbi.nlm.nih.gov/gene/23660	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005538	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(ebv-mir-bhrf1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	Lymphoblastoid cell lines	-	Host	mRNA	ZNF227	http://www.ncbi.nlm.nih.gov/gene/7770	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005539	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(mir-BHRF1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	B cell lymphomagenesis	-	Host	mRNA	GUF1	http://www.ncbi.nlm.nih.gov/gene/60558	-	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00005540	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-1(mir-BHRF1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001064	B cell lymphomagenesis	-	Host	mRNA	SCRN1	http://www.ncbi.nlm.nih.gov/gene/9805	-	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VHID00005541	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(BHRF1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	-	-	Host	Protein	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	Downregulation	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets (Table 1).Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV- and EBV-encoded miRNAs.
VHID00005542	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(BHRF1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	-	-	Host	Protein	KDM4B	http://www.ncbi.nlm.nih.gov/gene/23030	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.
VHID00005543	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(BHRF1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	-	-	Host	Protein	ZNF451	http://www.ncbi.nlm.nih.gov/gene/26036	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	For each of them, direct interactions between 3'UTR and EBV miRNAs were confirmed by luciferase assay but no functional assay has been performed so far (Table 2).Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation (PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP) or RNA immunoprecipitation and microarray (RIP-Chip) techniques. Validation of these targets was done using luciferase reporter assays.
VHID00005544	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	ANKRD13A	http://www.ncbi.nlm.nih.gov/gene/88455	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005545	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	ARL6IP5	http://www.ncbi.nlm.nih.gov/gene/10550	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005546	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	ASPH	http://www.ncbi.nlm.nih.gov/gene/444	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005547	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	CHD4	http://www.ncbi.nlm.nih.gov/gene/1108	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005548	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	CLCN3	http://www.ncbi.nlm.nih.gov/gene/1182	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005549	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	DAZAP1	http://www.ncbi.nlm.nih.gov/gene/26528	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005550	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	DCK	http://www.ncbi.nlm.nih.gov/gene/1633	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005551	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	DCTN4	http://www.ncbi.nlm.nih.gov/gene/51164	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005552	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	DHX15	http://www.ncbi.nlm.nih.gov/gene/1665	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005553	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	EPC2	http://www.ncbi.nlm.nih.gov/gene/26122	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005554	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	FNIP2	http://www.ncbi.nlm.nih.gov/gene/57600	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005555	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	HCFC2	http://www.ncbi.nlm.nih.gov/gene/29915	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005556	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	HDAC2	http://www.ncbi.nlm.nih.gov/gene/3066	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005557	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	HIPK2	http://www.ncbi.nlm.nih.gov/gene/653052	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005558	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	IFFO2	http://www.ncbi.nlm.nih.gov/gene/126917	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005559	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	INSIG1	http://www.ncbi.nlm.nih.gov/gene/3638	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005560	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	KLHL5	http://www.ncbi.nlm.nih.gov/gene/51088	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005561	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	LIN54	http://www.ncbi.nlm.nih.gov/gene/132660	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005562	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	MITD1	http://www.ncbi.nlm.nih.gov/gene/129531	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005563	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	MLLT3	http://www.ncbi.nlm.nih.gov/gene/4300	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005564	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	OSBPL3	http://www.ncbi.nlm.nih.gov/gene/26031	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005565	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	PAG1	http://www.ncbi.nlm.nih.gov/gene/55824	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005566	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	PDIK1L	http://www.ncbi.nlm.nih.gov/gene/149420	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005567	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	PIP5K2A	http://www.ncbi.nlm.nih.gov/gene/5305	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005568	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	PPM1A	http://www.ncbi.nlm.nih.gov/gene/5494	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005569	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	PRDM1	http://www.ncbi.nlm.nih.gov/gene/639	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005570	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	PRPF40A	http://www.ncbi.nlm.nih.gov/gene/55660	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005571	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	RAPGEF6	http://www.ncbi.nlm.nih.gov/gene/51735	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005572	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	RBM26	http://www.ncbi.nlm.nih.gov/gene/64062	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005573	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	RBM47	http://www.ncbi.nlm.nih.gov/gene/54502	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005574	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	RIPK2	http://www.ncbi.nlm.nih.gov/gene/8767	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005575	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	SEC61G	http://www.ncbi.nlm.nih.gov/gene/23480	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005576	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	SERPINB9	http://www.ncbi.nlm.nih.gov/gene/5272	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005577	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	SMAD7	http://www.ncbi.nlm.nih.gov/gene/4092	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005578	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	SPOPL	http://www.ncbi.nlm.nih.gov/gene/339745	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005579	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	TBC1D14	http://www.ncbi.nlm.nih.gov/gene/57533	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005580	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	USP42	http://www.ncbi.nlm.nih.gov/gene/84132	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005581	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-2(ebv-mir-bhrf1-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001065	Lymphoblastoid cell lines	-	Host	mRNA	ZNF451	http://www.ncbi.nlm.nih.gov/gene/26036	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005582	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(BHRF1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	-	-	Host	Protein	CXCL11	http://www.ncbi.nlm.nih.gov/gene/6373	-	PAR-CLIP,luciferase assays,HITS-CLIP,RIP-Chip.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets (Table 1).Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV- and EBV-encoded miRNAs.
VHID00005583	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(ebv-mir-bhrf1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	Lymphoblastoid cell lines	-	Host	mRNA	ARHGEF2	http://www.ncbi.nlm.nih.gov/gene/9181	-	PAR-CLIP.	22291592	We identified an additional 2,972 CDS miRNA-interaction sites present in at least two libraries, 89.7% of which could be assigned to a miRNA (Table S7).
VHID00005584	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(ebv-mir-bhrf1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	Lymphoblastoid cell lines	-	Host	mRNA	C10orf46	http://www.ncbi.nlm.nih.gov/gene/143384	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005585	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(ebv-mir-bhrf1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	Lymphoblastoid cell lines	-	Host	mRNA	FBRS	http://www.ncbi.nlm.nih.gov/gene/64319	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005586	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(ebv-mir-bhrf1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	Lymphoblastoid cell lines	-	Host	mRNA	FMNL3	http://www.ncbi.nlm.nih.gov/gene/91010	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005587	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(ebv-mir-bhrf1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	Lymphoblastoid cell lines	-	Host	mRNA	HDAC1	http://www.ncbi.nlm.nih.gov/gene/3065	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005588	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(ebv-mir-bhrf1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	Lymphoblastoid cell lines	-	Host	mRNA	MATR3	http://www.ncbi.nlm.nih.gov/gene/9782	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005589	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(ebv-mir-bhrf1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	Lymphoblastoid cell lines	-	Host	mRNA	MFN1	http://www.ncbi.nlm.nih.gov/gene/55669	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005590	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(ebv-mir-bhrf1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	Lymphoblastoid cell lines	-	Host	mRNA	NAA50(NAT13)		-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005591	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(ebv-mir-bhrf1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	Lymphoblastoid cell lines	-	Host	mRNA	PTEN	http://www.ncbi.nlm.nih.gov/gene/11191	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005592	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(ebv-mir-bhrf1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	Lymphoblastoid cell lines	-	Host	mRNA	RAP2A	http://www.ncbi.nlm.nih.gov/gene/5911	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005593	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(ebv-mir-bhrf1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	Lymphoblastoid cell lines	-	Host	mRNA	RPL11	http://www.ncbi.nlm.nih.gov/gene/6135	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005594	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(ebv-mir-bhrf1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	Lymphoblastoid cell lines	-	Host	mRNA	SLC16A6	http://www.ncbi.nlm.nih.gov/gene/9120	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005595	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(ebv-mir-bhrf1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	Lymphoblastoid cell lines	-	Host	mRNA	VAV2	http://www.ncbi.nlm.nih.gov/gene/7410	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005596	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(ebv-mir-bhrf1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	Lymphoblastoid cell lines	-	Host	mRNA	WDR45L	http://www.ncbi.nlm.nih.gov/gene/56270	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005597	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(ebv-mir-bhrf1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	Lymphoblastoid cell lines	-	Host	mRNA	ZNF202	http://www.ncbi.nlm.nih.gov/gene/7753	-	PAR-CLIP.	22291592	We identified 7,827 miRNA-interaction sites in 3,492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.
VHID00005598	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(miR-BHRF1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	T cells	-	Host	mRNA	CXCL11	http://www.ncbi.nlm.nih.gov/gene/6373	Downregulation	-	19158788	The final known example of a cellular gene product downregulated by a viral miRNA is provided by CXCL-11, also called I-TAC, an interferon-inducible chemokine that acts as an attractant for T-cells. The mRNA encoding CXCL-11 is downregulated by EBV miR-BHRF1-3, which is expressed at high levels in many B cell tumors induced by EBV.
VHID00005599	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3(mir-BHRF1-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	-	-	Host	Protein	CXCL11	http://www.ncbi.nlm.nih.gov/gene/6373	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00005600	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-bart7*	#	BC-1	-	Host	mRNA	TAF2	http://www.ncbi.nlm.nih.gov/gene/6873	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005601	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-bart7*	#	BC-1	-	Host	mRNA	TGIF2	http://www.ncbi.nlm.nih.gov/gene/60436	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005602	Herpes simplex virus 1(HSV-1)	Chlorocebus sabaeus	Virus	miRNA	hsv1-mir-H27	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0024977	African green monkey kidney cells	-	Host	mRNA	KLHL24	http://www.ncbi.nlm.nih.gov/gene/103221166	Downregulation	Western blot,Quantitative real-time PCR.	23512275	We demonstrate that a miRNA, hsv1-mir-H27, encoded within the genome of herpes simplex virus 1 (HSV-1), targets the mRNA of the cellular transcriptional repressor Kelch-like 24 (KLHL24) that inhibits transcriptional efficiency of viral immediate-early and early genes. The viral miRNA is able to block the expression of KLHL24 in cells infected by HSV-1. .
VHID00005603	Herpes simplex virus 1(HSV-1)	Homo sapiens	Virus	miRNA	hsv1-mir-LAT(miR-LAT)	#	Sensory neurons	-	Host	Protein	SMAD3	http://www.ncbi.nlm.nih.gov/gene/4088	Downregulation	Reporter assays,RT-PCR,Northern blotting and Western analysis.	16738545	miR-LAT exerts its anti-apoptotic effect by downregulation of transforming growth factor(TGF)-beta 1 and SMAD3 expression, both of which are functionally linked in the TGF-beta pathway.
VHID00005604	Herpes simplex virus 1(HSV-1)	Homo sapiens	Virus	miRNA	hsv1-mir-LAT(miR-LAT)	#	Sensory neurons	-	Host	Protein	TGFB1(TGF-beta)	http://www.ncbi.nlm.nih.gov/gene/7040	Downregulation	Reporter assays,RT-PCR,Northern blotting and Western analysis.	16738545	miR-LAT exerts its anti-apoptotic effect by downregulation of transforming growth factor(TGF)-beta 1 and SMAD3 expression, both of which are functionally linked in the TGF-beta pathway.
VHID00005605	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR 1	http://lncrnadb.com/Detail.aspx?TKeyID=240	marmoset T cells	-	Host	miRNA	miR-27	-	Downregulation	HITS-CLIP, mRNA-Seq, Luciferase Reporter Assays, Western Blot Analysis, Enzyme-Linked Immunosorbent Assay.	24725595	In marmoset T cells transformed by Herpesvirus saimiri (HVS), a viral U-rich noncoding (nc) RNA, HSUR 1, specifically mediates degradation of host microRNA-27 (miR-27). High-throughput sequencing of RNA after crosslinking immunoprecipitation (HITS-CLIP) identified mRNAs targeted by miR-27 as enriched in the T cell receptor (TCR) signaling pathway, including GRB2.
VHID00005606	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR1	http://lncrnadb.com/Detail.aspx?TKeyID=240	-	-	Host	Protein	ELAVL1(HuR)	http://www.ncbi.nlm.nih.gov/gene/101036795	-	Transient-transfection and immunoprecipitation of HSURs.	15632062	HSURs 1, 2, and 5 have been shown to contain destabilizing AU-rich elements (AREs) at their 5' ends that interact with the ARE-binding protein HuR .
VHID00005607	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR1	http://lncrnadb.com/Detail.aspx?TKeyID=240	HeLa cell line	-	Host	Protein	SMN1(SMN)	http://www.ncbi.nlm.nih.gov/gene/101028267	-	Purification and analysis of native SMN complex, Transient-transfection and immunoprecipitation of HSURs, Indirect immunofluorescence.	15632062	HVS encodes seven small RNAs (HSURs) of unknown function. The HSURs acquire host Sm proteins and assemble Sm cores similar to those found on the spliceosomal small nuclear RNPs (snRNPs). Here we show that, like host snRNPs, HSURs use the SMN (survival of motor neurons) complex to assemble Sm cores. As shown in Fig.1B, HSURs 1, 3, 4, and 5 bound specifically and efficiently to the SMN complex.
VHID00005608	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR1	http://lncrnadb.com/Detail.aspx?TKeyID=240	HeLa cells	-	Host	Protein	ELAVL1(HuR)	http://www.ncbi.nlm.nih.gov/gene/101036795	-	Whole cell run-on assays, RNase protection and primer extension assays, Immunoprecipitation of HSURs, UV cross-linking competition assays.	9334320	The viral small nuclear RNA (snRNA) Herpesvirus saimiri U RNA 1 (HSUR 1) also contains an AUUUA-rich sequence. This ARE induces rapid degradation of HSUR 1 itself and of other snRNAs including HSUR 2 and cellular U1. Moreover,the in vivo degradation activity of mutant AREs correlates with their in vitro binding to the HuR protein, implicated previously as a component of the mRNA degradation machinery.
VHID00005609	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR1	http://lncrnadb.com/Detail.aspx?TKeyID=240	Marmoset T cells	-	Host	Protein	CD52	#	-	Microarray, Northern analyses.	15916956	The Herpesvirus saimiri U RNAs (HSURs) are the most abundant viral transcripts in HVS-transformed, latently infected T cells but are not required for viral replication or transformation in vitro. Microarray and Northern analyses reveal that HSUR 1 and 2 expression correlates with significant increases in a small number of host mRNAs, including the T cell-receptor beta and gamma chains, the T cell and natural killer(NK) cell-surface receptors CD52 and DAP10, and intracellular proteins--SKAP55, granulysin, and NKG7--linked to T cell and NK cell activation.
VHID00005610	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR1	http://lncrnadb.com/Detail.aspx?TKeyID=240	Marmoset T cells	-	Host	Protein	DAP10	#	-	Microarray, Northern analyses.	15916956	The Herpesvirus saimiri U RNAs (HSURs) are the most abundant viral transcripts in HVS-transformed, latently infected T cells but are not required for viral replication or transformation in vitro. Microarray and Northern analyses reveal that HSUR 1 and 2 expression correlates with significant increases in a small number of host mRNAs, including the T cell-receptor beta and gamma chains, the T cell and natural killer(NK) cell-surface receptors CD52 and DAP10, and intracellular proteins--SKAP55, granulysin, and NKG7--linked to T cell and NK cell activation.
VHID00005611	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR1	http://lncrnadb.com/Detail.aspx?TKeyID=240	Marmoset T cells	-	Host	Protein	Granulysin	#	-	Microarray, Northern analyses.	15916956	The Herpesvirus saimiri U RNAs (HSURs) are the most abundant viral transcripts in HVS-transformed, latently infected T cells but are not required for viral replication or transformation in vitro. Microarray and Northern analyses reveal that HSUR 1 and 2 expression correlates with significant increases in a small number of host mRNAs, including the T cell-receptor beta and gamma chains, the T cell and natural killer(NK) cell-surface receptors CD52 and DAP10, and intracellular proteins--SKAP55, granulysin, and NKG7--linked to T cell and NK cell activation.
VHID00005612	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR1	http://lncrnadb.com/Detail.aspx?TKeyID=240	Marmoset T cells	-	Host	Protein	LOC101042301(Sm)	http://www.ncbi.nlm.nih.gov/gene/101042301	-	5' End Determination of HSURs, RNAase T 1 Protection Assay, Plasmids and M13 Constructs, Gel Electrophoresis.	2842058	Four novel U RNAs are encoded by a herpesvirus. Marmoset T lymphocytes transformed by herpesvirus saimiri contain the first virally encoded U RNAs (called HSURs) to be identified. HSURs bind proteins with Sm determinants and acquire a 5' trimethylguanosine cap structure.
VHID00005613	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR1	http://lncrnadb.com/Detail.aspx?TKeyID=240	Marmoset T cells	-	Host	Protein	NKG7	http://www.ncbi.nlm.nih.gov/gene/100410802	-	Microarray, Northern analyses.	15916956	The Herpesvirus saimiri U RNAs (HSURs) are the most abundant viral transcripts in HVS-transformed, latently infected T cells but are not required for viral replication or transformation in vitro. Microarray and Northern analyses reveal that HSUR 1 and 2 expression correlates with significant increases in a small number of host mRNAs, including the T cell-receptor beta and gamma chains, the T cell and natural killer(NK) cell-surface receptors CD52 and DAP10, and intracellular proteins--SKAP55, granulysin, and NKG7--linked to T cell and NK cell activation.
VHID00005614	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR1	http://lncrnadb.com/Detail.aspx?TKeyID=240	Marmoset T cells	-	Host	Protein	SKAP55	#	-	Microarray, Northern analyses.	15916956	The Herpesvirus saimiri U RNAs (HSURs) are the most abundant viral transcripts in HVS-transformed, latently infected T cells but are not required for viral replication or transformation in vitro. Microarray and Northern analyses reveal that HSUR 1 and 2 expression correlates with significant increases in a small number of host mRNAs, including the T cell-receptor beta and gamma chains, the T cell and natural killer(NK) cell-surface receptors CD52 and DAP10, and intracellular proteins--SKAP55, granulysin, and NKG7--linked to T cell and NK cell activation.
VHID00005615	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR1	http://lncrnadb.com/Detail.aspx?TKeyID=240	Marmoset T cells	-	Host	Protein	TCR	#	-	Microarray, Northern analyses.	15916956	The Herpesvirus saimiri U RNAs (HSURs) are the most abundant viral transcripts in HVS-transformed, latently infected T cells but are not required for viral replication or transformation in vitro. Microarray and Northern analyses reveal that HSUR 1 and 2 expression correlates with significant increases in a small number of host mRNAs, including the T cell-receptor beta and gamma chains, the T cell and natural killer(NK) cell-surface receptors CD52 and DAP10, and intracellular proteins--SKAP55, granulysin, and NKG7--linked to T cell and NK cell activation.
VHID00005616	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR1	http://lncrnadb.com/Detail.aspx?TKeyID=240	marmoset T cells	-	Host	miRNA	miR-27	#	Downregulation	Mutational analyses.	21139068	Mutational analyses demonstrated that the binding of miR-27 to HSUR1 and that of miR-16 to HSUR2 involves base pairing.Transient knockdown and ectopic expression of HSUR1 demonstrated that degradation of mature miR-27 occurs in a sequence-specific.
VHID00005617	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR1	http://lncrnadb.com/Detail.aspx?TKeyID=240	marmoset T-cell line	Downregulation	Host	miRNA	miR-142-3p	#	Downregulation	Coimmunoprecipitation experiments, Quantitative real-time polymerase chain reaction (PCR), synthetic miRNA duplexes.	20558719	Bioinformatic searches then revealed complementarity between these HSUR sequences and three microRNAs(miRNAs) expressed in T cells: miR-142-3p, miR-27, and miR-16.
VHID00005618	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR1	http://lncrnadb.com/Detail.aspx?TKeyID=240	marmoset T-cell line	Downregulation	Host	miRNA	miR-16	#	Downregulation	Coimmunoprecipitation experiments, Quantitative real-time polymerase chain reaction (PCR), synthetic miRNA duplexes.	20558719	Bioinformatic searches then revealed complementarity between these HSUR sequences and three microRNAs(miRNAs) expressed in T cells: miR-142-3p, miR-27, and miR-16.
VHID00005619	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR1	http://www.lncrnadb.org/Detail.aspx?TKeyID=240	marmoset T-cell line	Downregulation	Host	miRNA	miR-27	#	Downregulation	Coimmunoprecipitation experiments, Quantitative real-time polymerase chain reaction (PCR), synthetic miRNA duplexes.	20558719	Coimmunoprecipitation experiments confirmed that HSURs 1 and 2 interact with the predicted miRNAs in virally transformed T cells. The abundance of one of these miRNAs, miR-27, is dramatically lowered in transformed cells, with consequent effects on the expression of miR-27 target genes. Transient knockdown and ectopic expression of HSUR 1 demonstrate that it directs degradation of mature miR-27 in a sequence-specific and binding-dependent manner.
VHID00005620	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR2	http://lncrnadb.com/Detail.aspx?TKeyID=240	-	-	Host	Protein	ELAVL1(HuR)	http://www.ncbi.nlm.nih.gov/gene/101036795	-	Transient-transfection and immunoprecipitation of HSURs.	15632062	HSURs 1, 2, and 5 have been shown to contain destabilizing AU-rich elements (AREs) at their 5' ends that interact with the ARE-binding protein HuR .
VHID00005621	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR2	http://lncrnadb.com/Detail.aspx?TKeyID=240	Jurkat T cells	-	Host	Protein	AUBF70	#	-	Band-shift assays, Polymerase chain reaction, Northern blots, Analytical SDS-PAGE electrophoresis.	7733817	Herpesvirus saimiri (H. saimiri) can transform T lymphocytes and cause lymphoid tumors in rabbits and New World monkeys. Jurkat T cells express a 70 kD RNA binding factor (AUBF70) which binds HSUR2.
VHID00005622	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR2	http://lncrnadb.com/Detail.aspx?TKeyID=240	Marmoset T cells	-	Host	Protein	CD52	#	-	Microarray, Northern analyses.	15916956	The Herpesvirus saimiri U RNAs (HSURs) are the most abundant viral transcripts in HVS-transformed, latently infected T cells but are not required for viral replication or transformation in vitro. Microarray and Northern analyses reveal that HSUR 1 and 2 expression correlates with significant increases in a small number of host mRNAs, including the T cell-receptor beta and gamma chains, the T cell and natural killer(NK) cell-surface receptors CD52 and DAP10, and intracellular proteins--SKAP55, granulysin, and NKG7--linked to T cell and NK cell activation.
VHID00005623	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR2	http://lncrnadb.com/Detail.aspx?TKeyID=240	Marmoset T cells	-	Host	Protein	DAP10	#	-	Microarray, Northern analyses.	15916956	The Herpesvirus saimiri U RNAs (HSURs) are the most abundant viral transcripts in HVS-transformed, latently infected T cells but are not required for viral replication or transformation in vitro. Microarray and Northern analyses reveal that HSUR 1 and 2 expression correlates with significant increases in a small number of host mRNAs, including the T cell-receptor beta and gamma chains, the T cell and natural killer(NK) cell-surface receptors CD52 and DAP10, and intracellular proteins--SKAP55, granulysin, and NKG7--linked to T cell and NK cell activation.
VHID00005624	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR2	http://lncrnadb.com/Detail.aspx?TKeyID=240	Marmoset T cells	-	Host	Protein	Granulysin	#	-	Microarray, Northern analyses.	15916956	The Herpesvirus saimiri U RNAs (HSURs) are the most abundant viral transcripts in HVS-transformed, latently infected T cells but are not required for viral replication or transformation in vitro. Microarray and Northern analyses reveal that HSUR 1 and 2 expression correlates with significant increases in a small number of host mRNAs, including the T cell-receptor beta and gamma chains, the T cell and natural killer(NK) cell-surface receptors CD52 and DAP10, and intracellular proteins--SKAP55, granulysin, and NKG7--linked to T cell and NK cell activation.
VHID00005625	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR2	http://lncrnadb.com/Detail.aspx?TKeyID=240	Marmoset T cells	-	Host	Protein	LOC101042301(Sm)	http://www.ncbi.nlm.nih.gov/gene/101042301	-	5' End Determination of HSURs, RNAase T 1 Protection Assay, Plasmids and M13 Constructs, Gel Electrophoresis.	2842058	Four novel U RNAs are encoded by a herpesvirus. Marmoset T lymphocytes transformed by herpesvirus saimiri contain the first virally encoded U RNAs (called HSURs) to be identified. HSURs bind proteins with Sm determinants and acquire a 5' trimethylguanosine cap structure.
VHID00005626	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR2	http://lncrnadb.com/Detail.aspx?TKeyID=240	Marmoset T cells	-	Host	Protein	NKG7	http://www.ncbi.nlm.nih.gov/gene/100410802	-	Microarray, Northern analyses.	15916956	The Herpesvirus saimiri U RNAs (HSURs) are the most abundant viral transcripts in HVS-transformed, latently infected T cells but are not required for viral replication or transformation in vitro. Microarray and Northern analyses reveal that HSUR 1 and 2 expression correlates with significant increases in a small number of host mRNAs, including the T cell-receptor beta and gamma chains, the T cell and natural killer(NK) cell-surface receptors CD52 and DAP10, and intracellular proteins--SKAP55, granulysin, and NKG7--linked to T cell and NK cell activation.
VHID00005627	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR2	http://lncrnadb.com/Detail.aspx?TKeyID=240	Marmoset T cells	-	Host	Protein	SKAP55	#	-	Microarray, Northern analyses.	15916956	The Herpesvirus saimiri U RNAs (HSURs) are the most abundant viral transcripts in HVS-transformed, latently infected T cells but are not required for viral replication or transformation in vitro. Microarray and Northern analyses reveal that HSUR 1 and 2 expression correlates with significant increases in a small number of host mRNAs, including the T cell-receptor beta and gamma chains, the T cell and natural killer(NK) cell-surface receptors CD52 and DAP10, and intracellular proteins--SKAP55, granulysin, and NKG7--linked to T cell and NK cell activation.
VHID00005628	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR2	http://lncrnadb.com/Detail.aspx?TKeyID=240	Marmoset T cells	-	Host	Protein	TCR	#	-	Microarray, Northern analyses.	15916956	The Herpesvirus saimiri U RNAs (HSURs) are the most abundant viral transcripts in HVS-transformed, latently infected T cells but are not required for viral replication or transformation in vitro. Microarray and Northern analyses reveal that HSUR 1 and 2 expression correlates with significant increases in a small number of host mRNAs, including the T cell-receptor beta and gamma chains, the T cell and natural killer(NK) cell-surface receptors CD52 and DAP10, and intracellular proteins--SKAP55, granulysin, and NKG7--linked to T cell and NK cell activation.
VHID00005629	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR2	http://lncrnadb.com/Detail.aspx?TKeyID=240	marmoset T cells	-	Host	miRNA	miR-16	#	-	Mutational analyses.	21139068	Mutational analyses demonstrated that the binding of miR-27 to HSUR1 and that of miR-16 to HSUR2 involves base pairing.Transient knockdown and ectopic expression of HSUR1 demonstrated that degradation of mature miR-27 occurs in a sequence-specific.
VHID00005630	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR2	http://lncrnadb.com/Detail.aspx?TKeyID=240	marmoset T-cell line	Downregulation	Host	miRNA	miR-142-3p	#	Downregulation	Coimmunoprecipitation experiments, Quantitative real-time polymerase chain reaction (PCR), synthetic miRNA duplexes.	20558719	Bioinformatic searches then revealed complementarity between these HSUR sequences and three microRNAs(miRNAs) expressed in T cells: miR-142-3p, miR-27, and miR-16.
VHID00005631	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR2	http://lncrnadb.com/Detail.aspx?TKeyID=240	marmoset T-cell line	Downregulation	Host	miRNA	miR-16	#	Downregulation	Coimmunoprecipitation experiments, Quantitative real-time polymerase chain reaction (PCR), synthetic miRNA duplexes.	20558719	Bioinformatic searches then revealed complementarity between these HSUR sequences and three microRNAs(miRNAs) expressed in T cells: miR-142-3p, miR-27, and miR-16.
VHID00005632	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR2	http://lncrnadb.com/Detail.aspx?TKeyID=240	marmoset T-cell line	Downregulation	Host	miRNA	miR-27	#	Downregulation	Coimmunoprecipitation experiments, Quantitative real-time polymerase chain reaction (PCR), synthetic miRNA duplexes.	20558719	Coimmunoprecipitation experiments confirmed that HSURs 1 and 2 interact with the predicted miRNAs in virally transformed T cells. The abundance of one of these miRNAs, miR-27, is dramatically lowered in transformed cells, with consequent effects on the expression of miR-27 target genes. Transient knockdown and ectopic expression of HSUR 1 demonstrate that it directs degradation of mature miR-27 in a sequence-specific and binding-dependent manner.
VHID00005633	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR3	#	HeLa cell line	-	Host	Protein	SMN1(SMN)	http://www.ncbi.nlm.nih.gov/gene/101028267	-	Purification and analysis of native SMN complex, Transient-transfection and immunoprecipitation of HSURs, indirect immunofluorescence, In situ hybridization.	15632062	HVS encodes seven small RNAs (HSURs) of unknown function. The HSURs acquire host Sm proteins and assemble Sm cores similar to those found on the spliceosomal small nuclear RNPs (snRNPs). Here we show that, like host snRNPs, HSURs use the SMN (survival of motor neurons) complex to assemble Sm cores. As shown in Fig.1B, HSURs 1, 3, 4, and 5 bound specifically and efficiently to the SMN complex.
VHID00005634	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR3	#	Marmoset T cells	-	Host	Protein	LOC101042301(Sm)	http://www.ncbi.nlm.nih.gov/gene/101042301	-	5' End Determination of HSURs, RNAase T 1 Protection Assay, Plasmids and M13 Constructs, Gel Electrophoresis.	2842058	Four novel U RNAs are encoded by a herpesvirus. Marmoset T lymphocytes transformed by herpesvirus saimiri contain the first virally encoded U RNAs (called HSURs) to be identified. HSURs bind proteins with Sm determinants and acquire a 5' trimethylguanosine cap structure.
VHID00005635	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR4	#	HeLa cell line	-	Host	Protein	SMN1(SMN)	http://www.ncbi.nlm.nih.gov/gene/101028267	-	Purification and analysis of native SMN complex, Transient-transfection and immunoprecipitation of HSURs, indirect immunofluorescence, In situ hybridization.	15632062	HVS encodes seven small RNAs (HSURs) of unknown function. The HSURs acquire host Sm proteins and assemble Sm cores similar to those found on the spliceosomal small nuclear RNPs (snRNPs). Here we show that, like host snRNPs, HSURs use the SMN (survival of motor neurons) complex to assemble Sm cores. As shown in Fig.1B, HSURs 1, 3, 4, and 5 bound specifically and efficiently to the SMN complex.
VHID00005636	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR4	#	Marmoset T cells	-	Host	Protein	LOC101042301(Sm)	http://www.ncbi.nlm.nih.gov/gene/101042301	-	5' End Determination of HSURs, RNAase T 1 Protection Assay, Plasmids and M13 Constructs, Gel Electrophoresis.	2842058	Four novel U RNAs are encoded by a herpesvirus. Marmoset T lymphocytes transformed by herpesvirus saimiri contain the first virally encoded U RNAs (called HSURs) to be identified. HSURs bind proteins with Sm determinants and acquire a 5' trimethylguanosine cap structure.
VHID00005637	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR5	#	-	-	Host	Protein	ELAVL1(HuR)	http://www.ncbi.nlm.nih.gov/gene/101036795	-	Transient-transfection and immunoprecipitation of HSURs.	15632062	HSURs 1, 2, and 5 have been shown to contain destabilizing AU-rich elements (AREs) at their 5' ends that interact with the ARE-binding protein HuR .
VHID00005638	Herpesvirus saimiri(HVS)	Callithrix jacchus	Virus	LncRNA	HSUR5	#	HeLa cell line	-	Host	Protein	SMN1(SMN)	http://www.ncbi.nlm.nih.gov/gene/101028267	-	Purification and analysis of native SMN complex, Transient-transfection and immunoprecipitation of HSURs, indirect immunofluorescence, In situ hybridization.	15632062	HVS encodes seven small RNAs (HSURs) of unknown function. The HSURs acquire host Sm proteins and assemble Sm cores similar to those found on the spliceosomal small nuclear RNPs (snRNPs). Here we show that, like host snRNPs, HSURs use the SMN (survival of motor neurons) complex to assemble Sm cores. As shown in Fig.1B, HSURs 1, 3, 4, and 5 bound specifically and efficiently to the SMN complex.
VHID00005639	Herpesvirus saimiri(HVS)	Saimiri boliviensis	Virus	LncRNA	HSUR1	http://www.lncrnadb.org/Detail.aspx?TKeyID=240	-	-	Host	Protein	LOC101042301(Sm)	http://www.ncbi.nlm.nih.gov/gene/101042301	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00005640	Herpesvirus saimiri(HVS)	Saimiri boliviensis	Virus	LncRNA	HSUR2	http://lncrnadb.com/Detail.aspx?TKeyID=240	-	-	Host	Protein	LOC101042301(Sm)	http://www.ncbi.nlm.nih.gov/gene/101042301	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00005641	Herpesvirus saimiri(HVS)	Saimiri boliviensis	Virus	LncRNA	HSUR3	#	-	-	Host	Protein	LOC101042301(Sm)	http://www.ncbi.nlm.nih.gov/gene/101042301	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00005642	Herpesvirus saimiri(HVS)	Saimiri boliviensis	Virus	LncRNA	HSUR4	#	-	-	Host	Protein	LOC101042301(Sm)	http://www.ncbi.nlm.nih.gov/gene/101042301	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00005643	Herpesvirus saimiri(HVS)	Saimiri boliviensis	Virus	LncRNA	HSUR5	#	-	-	Host	Protein	LOC101042301(Sm)	http://www.ncbi.nlm.nih.gov/gene/101042301	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00005644	Herpesvirus saimiri(HVS)	Saimiri boliviensis	Virus	LncRNA	HSUR6	#	-	-	Host	Protein	LOC101042301(Sm)	http://www.ncbi.nlm.nih.gov/gene/101042301	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00005645	Herpesvirus saimiri(HVS)	Saimiri boliviensis	Virus	LncRNA	HSUR7	#	-	-	Host	Protein	LOC101042301(Sm)	http://www.ncbi.nlm.nih.gov/gene/101042301	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. table 1 Viral ncRNAs excluding miRNAs.
VHID00005646	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	LncRNA	Beta2.7	http://lncrnadb.com/Detail.aspx?TKeyID=223	-	-	Host	Protein	GRIM-19	http://www.ncbi.nlm.nih.gov/gene/51079	-	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	Assigning functions to cellular ncRNAs is not straightforward(in contrast to mRNAs), and viral ncRNAs present even more challenging problems. Here, we review current insights into the roles of viral ncRNPs  and how they relate to the viral takeover agenda. Table 1 Viral ncRNAs excluding miRNAs.
VHID00005647	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	LncRNA	beta2.7	http://lncrnadb.com/Detail.aspx?TKeyID=223	Neuronal U373 cells	-	Host	Protein	Complex I	#	-	-	17540903	During infection, beta2.7 RNA interacted with complex I and prevented the relocalization of the essential subunit genes associated with retinoid/interferon-induced mortality-19, in response to apoptotic stimuli. ComplexI targeting by a viral RNA represents a refined strategy to modulate the metabolic viability of the infected host cell.
VHID00005648	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	LncRNA	beta2.7	http://lncrnadb.com/Detail.aspx?TKeyID=223	Neuronal U373 cells	-	Host	Protein	NDUFA13(GRIM-19)	http://www.ncbi.nlm.nih.gov/gene/51079	-	-	17540903	During infection, beta2.7 RNA interacted with complex I and prevented the relocalization of the essential subunit genes associated with retinoid/interferon-induced mortality-19, in response to apoptotic stimuli. ComplexI targeting by a viral RNA represents a refined strategy to modulate the metabolic viability of the infected host cell. One role of the HCMV beta2.7 transcript may be to mediate protection of the cell from apoptotic pathways activated by metabolic stress of complex I. Genes associated with retinoid/interferon-induced mortality (GRIM)-19 is a subunit of complex I that is essential for its assembly and function.
VHID00005649	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-miR-US25-2-3p(miR-US25-2-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0001583	MRC-5 cells	Upregulation	Host	Protein	EIF4A1(eIF4A1)	http://www.ncbi.nlm.nih.gov/gene/1973	Downregulation	Microarray analysis.	23747307	In our study, eukaryotic translation initiation factor 4A1 (eIF4A1) was identified to be a direct target of miR-US25-2-3p. Small interfering RNA (siRNA) and miR-US25-2-3p mediated eIF4A1 knockdown experiments revealed that high level of miR-US25-2-3p in MRC-5 cells decreased HCMV and host genomic DNA synthesis, and inhibited cap-dependent translation and host cell proliferation. However, eIF4A1 up-regulation induced by miR-US25-2-3p inhibitor increased HCMV copy number.
VHID00005650	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Host	Protein	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	Downregulation	An algorithm for the prediction of miRNA targets, miRNA-based immunoevasion mechanism.	17641203	We show that hcmv-miR-UL112 specifically down-regulates MICB expression during viral infection.
VHID00005651	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Host	Protein	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	Downregulation	Luciferase assay, Computational predictions, Western blotting, Real-time PCR analysis, FACS staining.	19656885	Indeed, we have previously demonstrated that a human cytomegalovirus (HCMV)-encoded miRNA, miR-UL112, downregulates the expression of a host immune gene, MICB.
VHID00005652	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Host	mRNA	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	Downregulation	-	19158788	One reported target for hCMV miR-UL112-1 is MICB, a natural killer (NK) cell ligand that plays a key role in NK cell killing of virus-infected cells.
VHID00005653	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	NK cells	-	Host	mRNA	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	Downregulation	-	22568714	Table2. Human CMV miRNAs and their functions. Inhibits HCMV IE1 gene expression, and acts as an immune response inhibitor to help viral replication.Inhibits HCMV IE1gene expression, and acts as an immune response inhibitor to help viral replication Specifically downregulates MICB expression during viral infection, leading to decreased binding of NKG2D and reduced killing by NK cells.
VHID00005654	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(hcmv-miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Host	mRNA	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	-	Quantitative Real-Time PCR, Luciferase Assay, Western Blot.	20413099	Recently, the activating NK cell ligand MICB was found to be targeted by both ebv-miR-BART2-5p, kshv-miR-K12-7 and hcmv-miR-UL112-1.
VHID00005655	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Host	Protein	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00005656	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Host	mRNA	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	Downregulation	Quantitative Real-Time PCR, Luciferase Assay, Western Blot.	19380116	Indeed, we have recently shown that an HCMV miRNA, miR-UL112, downregulates MICB expression, thus leading to the reduced killing of infected cells by NK cells.
VHID00005657	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Host	mRNA	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	-	Luciferase assay, Western blot analysis, miRNA expression cassettes, Sequence analysis, miR-US25-1 KO virus, RT-PCR analysis, RNA induced silencing complex immunoprecipitation(RISC-IP) techniques.	20585629	In addition, miR-UL112-1 targets the cellular gene MICB, resulting in protection against recognition by natural killer cells .
VHID00005658	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112-1(hcmv-miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	Human embryonic kidney 293(HEK293) cells	-	Host	Protein	IL32(IL-32)	http://www.ncbi.nlm.nih.gov/gene/9235	Downregulation	Semi-quantitative RT-PC, TaqMan? miRNA assays, Luciferase assay, Western blot.	23402302	IL-32 expression was induced by active HCMV infection and could be functionally down-regulated by ectopically expressed hcmv-miR-UL112-1. .
VHID00005659	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL148D	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001681	Human embryonic kidney 293(HEK293) cells	-	Host	Protein	IER3(IEX-1)	http://www.ncbi.nlm.nih.gov/gene/8870	Downregulation	Western blot analysis, Luciferase reporter assay, Hybrid-PCR.	23403649	HCMV(Human cytomegalovirus) encodes at least 14 miRNAs, including hcmv-mir-UL148D, which resides in the HCMV UL/b' region. In vitro system of human embryonic kidney 293(HEK293) cells, the ectopically expressed hcmv-mir-UL148D exhibited a downregulatory effect on IEX-1 expression, and decreased the cell apoptosis induced by transfected IEX-1.
VHID00005660	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL148D	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001681	human embryonic kidney 293 (HEK293) cells	-	Host	Protein	IER3(IEX-1)	http://www.ncbi.nlm.nih.gov/gene/8870	Downregulation	hybrid-PCR screening,dual luciferase reporter assay, western blot analysis,apoptosis assay.	23403649	In this study, hybrid-PCR screening was used to identify target genes and dual luciferase reporter assay was used to evaluate the binding effect of hcmv-miR-UL148D to the 3' untranslated region (3'UTR) of IEX-1.
VHID00005661	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	CCNE2	http://www.ncbi.nlm.nih.gov/gene/9134	Downregulation	-	22568714	Table2. Human CMV miRNAs and their functions. Inhibits HCMV IE1 gene expression, and acts as an immune response inhibitor to help viral replication.Inhibits HCMV IE1gene expression, and acts as an immune response inhibitor to help viral replication Specifically downregulates MICB expression during viral infection, leading to decreased binding of NKG2D and reduced killing by NK cells.
VHID00005662	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	H3F3B	http://www.ncbi.nlm.nih.gov/gene/3021	Downregulation	-	22568714	Table2. Human CMV miRNAs and their functions. Inhibits HCMV IE1 gene expression, and acts as an immune response inhibitor to help viral replication.Inhibits HCMV IE1gene expression, and acts as an immune response inhibitor to help viral replication Specifically downregulates MICB expression during viral infection, leading to decreased binding of NKG2D and reduced killing by NK cells.
VHID00005663	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	TRIM28	http://www.ncbi.nlm.nih.gov/gene/10155	Downregulation	-	22568714	Table2. Human CMV miRNAs and their functions. Inhibits HCMV IE1 gene expression, and acts as an immune response inhibitor to help viral replication.Inhibits HCMV IE1gene expression, and acts as an immune response inhibitor to help viral replication Specifically downregulates MICB expression during viral infection, leading to decreased binding of NKG2D and reduced killing by NK cells.
VHID00005664	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	Protein	CCNE2	http://www.ncbi.nlm.nih.gov/gene/9134	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00005665	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	Protein	H3F3B	http://www.ncbi.nlm.nih.gov/gene/3021	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00005666	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	Protein	TRIM28	http://www.ncbi.nlm.nih.gov/gene/10155	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00005667	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	ASPSCR1	http://www.ncbi.nlm.nih.gov/gene/79058	-	Luciferase assay.	20585629	Top 20 ranked cellular targets of miR-US25-1(Table 1).
VHID00005668	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	ASRGL1	http://www.ncbi.nlm.nih.gov/gene/80150	-	Luciferase assay.	20585629	Top 20 ranked cellular targets of miR-US25-1(Table 1).
VHID00005669	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	ATP6V0C	http://www.ncbi.nlm.nih.gov/gene/527	-	Luciferase assay.	20585629	Top 20 ranked cellular targets of miR-US25-1(Table 1).
VHID00005670	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	BCKDHA	http://www.ncbi.nlm.nih.gov/gene/593	-	Luciferase assay.	20585629	Top 20 ranked cellular targets of miR-US25-1(Table 1).
VHID00005671	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	BLVRA	http://www.ncbi.nlm.nih.gov/gene/644	-	Luciferase assay.	20585629	Top 20 ranked cellular targets of miR-US25-1(Table 1).
VHID00005672	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	BRCC3	http://www.ncbi.nlm.nih.gov/gene/79184	Downregulation	Luciferase assay, Western blot analysis, miRNA expression cassettes, Sequence analysis, miR-US25-1 KO virus, RT-PCR analysis, RNA induced silencing complex immunoprecipitation(RISC-IP) techniques.	20585629	Intriguingly,many of the genes targeted by miR-US25-1 are associated with cell cycle control, including cyclin E2, BRCC3, EID1, MAPRE2, and CD147, suggesting that miR-US25-1 is targeting genes within a related pathway.
VHID00005673	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	CCDC58	http://www.ncbi.nlm.nih.gov/gene/131076	-	Luciferase assay.	20585629	Top 20 ranked cellular targets of miR-US25-1(Table 1).
VHID00005674	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	CCNE2(cyclin E2)	http://www.ncbi.nlm.nih.gov/gene/9134	Downregulation	Luciferase assay, Western blot analysis, RISC-IP analysis, miRNA expression cassettes, Sequence analysis, miR-US25-1 KO virus, RT-PCR analysis.	20585629	Here, we show the virus also induces expression of cyclin E2 early in infection, then moderates cyclin E2 protein levels through targeting by miR-US25-1.To confirm that enrichment of identified transcripts was due to binding of miR-US25-1 to the 5'UTR, the 5'UTRs and ~500 bases of upstream genomic sequence of two of the top target genes, cyclin E2 and H3F3B, were cloned in front of a luciferase reporter construct.
VHID00005675	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	CD147	http://www.ncbi.nlm.nih.gov/gene/682	Downregulation	Luciferase assay, Western blot analysis, miRNA expression cassettes, Sequence analysis, miR-US25-1 KO virus, RT-PCR analysis, RNA induced silencing complex immunoprecipitation(RISC-IP) techniques.	20585629	Intriguingly,many of the genes targeted by miR-US25-1 are associated with cell cycle control, including cyclin E2, BRCC3, EID1, MAPRE2, and CD147, suggesting that miR-US25-1 is targeting genes within a related pathway.
VHID00005676	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	DBN1	http://www.ncbi.nlm.nih.gov/gene/1627	-	Luciferase assay.	20585629	Top 20 ranked cellular targets of miR-US25-1(Table 1).
VHID00005677	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	EID1	http://www.ncbi.nlm.nih.gov/gene/23741	Downregulation	Luciferase assay, Western blot analysis, miRNA expression cassettes, Sequence analysis, miR-US25-1 KO virus, RT-PCR analysis, RNA induced silencing complex immunoprecipitation(RISC-IP) techniques.	20585629	Intriguingly,many of the genes targeted by miR-US25-1 are associated with cell cycle control, including cyclin E2, BRCC3, EID1, MAPRE2, and CD147, suggesting that miR-US25-1 is targeting genes within a related pathway.
VHID00005678	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	H3F3B	http://www.ncbi.nlm.nih.gov/gene/3021	-	Luciferase assay, Western blot analysis, miRNA expression cassettes, Sequence analysis, miR-US25-1 KO virus, RT-PCR analysis, RNA induced silencing complex immunoprecipitation(RISC-IP) techniques.	20585629	To confirm that enrichment of identified transcripts was due to binding of miR-US25-1 to the 5'UTR, the 5'UTRs and k500 bases of upstream genomic sequence of two of the top target genes, cyclin E2 and H3F3B, were cloned in front of a luciferase reporter construct.
VHID00005679	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	LOC440093	#	-	Luciferase assay.	20585629	Top 20 ranked cellular targets of miR-US25-1(Table 1).
VHID00005680	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	MAPRE2	http://www.ncbi.nlm.nih.gov/gene/10982	Downregulation	Luciferase assay, Western blot analysis, miRNA expression cassettes, Sequence analysis, miR-US25-1 KO virus, RT-PCR analysis, RNA induced silencing complex immunoprecipitation(RISC-IP) techniques.	20585629	Intriguingly,many of the genes targeted by miR-US25-1 are associated with cell cycle control, including cyclin E2, BRCC3, EID1, MAPRE2, and CD147, suggesting that miR-US25-1 is targeting genes within a related pathway.
VHID00005681	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	NUCB2	http://www.ncbi.nlm.nih.gov/gene/4925	-	Luciferase assay.	20585629	Top 20 ranked cellular targets of miR-US25-1(Table 1).
VHID00005682	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	POP4	http://www.ncbi.nlm.nih.gov/gene/10775	-	Luciferase assay.	20585629	Top 20 ranked cellular targets of miR-US25-1(Table 1).
VHID00005683	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	PSMA4	http://www.ncbi.nlm.nih.gov/gene/5685	-	Luciferase assay.	20585629	Top 20 ranked cellular targets of miR-US25-1(Table 1).
VHID00005684	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	SGK1(SGK)	http://www.ncbi.nlm.nih.gov/gene/6446	-	Luciferase assay.	20585629	Top 20 ranked cellular targets of miR-US25-1(Table 1).
VHID00005685	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	SGSH	http://www.ncbi.nlm.nih.gov/gene/6448	-	Luciferase assay.	20585629	Top 20 ranked cellular targets of miR-US25-1(Table 1).
VHID00005686	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US25-1(miR-US25-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001684	-	-	Host	mRNA	TRIM28	http://www.ncbi.nlm.nih.gov/gene/10155	Downregulation	Luciferase assays, Western blot analysis, RISC-IP analysis, miRNA expression cassettes, Sequence analysis, miR-US25-1 KO virus, RT-PCR analysis.	20585629	The effects of virally expressed miR-US25-1 on two top targets, cyclin E2 and TRIM28, were determined by western blot analysis. gure 5d also shows a clear increase in expression of cyclin E2, and to a lesser extent TRIM28, in cells infected with the miR-US25-1 knock-out virus compared to wild type infected cells, demonstrating that miR-US25-1 reduces the expression of these target genes.
VHID00005687	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US4(miR-US4-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003687	CD8+ T cell	-	Host	mRNA	ERAP1	http://www.ncbi.nlm.nih.gov/gene/51752	Downregulation	PCR.	22568714	Table2. Human CMV miRNAs and their functions. Inhibits HCMV IE1 gene expression, and acts as an immune response inhibitor to help viral replication.Inhibits HCMV IE1gene expression, and acts as an immune response inhibitor to help viral replication Specifically downregulates MICB expression during viral infection, leading to decreased binding of NKG2D and reduced killing by NK cells.
VHID00005688	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US4(miR-US4-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003687	HCMV-specific cytotoxic T lymphocytes	-	Host	Protein	ERAP1	http://www.ncbi.nlm.nih.gov/gene/51752	Downregulation	QRT-PCR, Luciferase assay, Immunoblotting, and RNase protection assay, RNA blotting.	21892175	We show here that HCMV miR-US4-1 specifically downregulated ERAP1 expression during viral infection.Accordingly, the trimming of HCMV-derived peptides is inhibited, leading to reduced susceptibility of infected cells to HCMV-specific cytotoxic T lymphocytes(CTLs)..
VHID00005689	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-miR-H1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006106	CD4+ T lymphocytes cells	-	Host	mRNA	AATF	http://www.ncbi.nlm.nih.gov/gene/26574	Downregulation	Predicted.	22936931	Table 1 includes the RNAi pathway related gene products that are targeted by HIV-1 microRNAs. List of published HIV-1 microRNAs and their target HIV-1 and cellular gene products.The target interactions of HIV-1 microRNAs with its mRNA seem to function as viral genome regulators.
VHID00005690	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-miR-H1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006106	CD4+ T lymphocytes cells	-	Host	mRNA	BCL2	http://www.ncbi.nlm.nih.gov/gene/596	Downregulation	Predicted.	22936931	Table 1 includes the RNAi pathway related gene products that are targeted by HIV-1 microRNAs. List of published HIV-1 microRNAs and their target HIV-1 and cellular gene products.The target interactions of HIV-1 microRNAs with its mRNA seem to function as viral genome regulators.
VHID00005691	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-miR-H1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006106	CD4+ T lymphocytes cells	-	Host	mRNA	DICER1(DICER)	http://www.ncbi.nlm.nih.gov/gene/23405	Downregulation	Predicted.	22936931	Table 1 includes the RNAi pathway related gene products that are targeted by HIV-1 microRNAs. List of published HIV-1 microRNAs and their target HIV-1 and cellular gene products.The target interactions of HIV-1 microRNAs with its mRNA seem to function as viral genome regulators.
VHID00005692	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-miR-H1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006106	CD4+ T lymphocytes cells	-	Host	mRNA	MYC	http://www.ncbi.nlm.nih.gov/gene/4609	Downregulation	Predicted.	22936931	Table 1 includes the RNAi pathway related gene products that are targeted by HIV-1 microRNAs. List of published HIV-1 microRNAs and their target HIV-1 and cellular gene products.The target interactions of HIV-1 microRNAs with its mRNA seem to function as viral genome regulators.
VHID00005693	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-miR-H1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006106	CD4+ T lymphocytes cells	-	Host	mRNA	PAWR	http://www.ncbi.nlm.nih.gov/gene/5074	Downregulation	Predicted.	22936931	Table 1 includes the RNAi pathway related gene products that are targeted by HIV-1 microRNAs. List of published HIV-1 microRNAs and their target HIV-1 and cellular gene products.The target interactions of HIV-1 microRNAs with its mRNA seem to function as viral genome regulators.
VHID00005694	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-miR-H1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006106	CD4+ T lymphocytes cells	-	Host	miRNA	hsa-miR-194(hsa-miR-194)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000488	Downregulation	Predicted.	22936931	Table 1 includes the RNAi pathway related gene products that are targeted by HIV-1 microRNAs. List of published HIV-1 microRNAs and their target HIV-1 and cellular gene products.The target interactions of HIV-1 microRNAs with its mRNA seem to function as viral genome regulators.
VHID00005695	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-miR-H1(miR-H1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006106	-	-	Host	Protein	AATF	http://www.ncbi.nlm.nih.gov/gene/26574	Downregulation	Luciferase reporter, immunofluorescence, RT-PCR.	21133815	MiR-H1 has been demonstrated to degrade the apoptosis antagonizing transcription factor(AATF) gene product. Downregulation of AATF is accompanied by lowered cell viability and lowered Bcl-2, c-myc, Par-4 and Dicer levels.
VHID00005696	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-miR-H1(miR-H1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006106	-	-	Host	miRNA	hsa-mir-149(miR149)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000478	Downregulation	Luciferase reporter, immunofluorescence, RT-PCR.	21133815	It was also noted further that HIV miR-H1 downregulated expression of the cellular miRNA miR149, which is considered to target the Vpr gene encoded by HIV-1.
VHID00005697	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-miR-TAR-5p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0006016	CD4+ T lymphocytes cells	-	Host	mRNA	ERCC1	http://www.ncbi.nlm.nih.gov/gene/2067	Downregulation	Luciferase assay.	22936931	Table 1 includes the RNAi pathway related gene products that are targeted by HIV-1 microRNAs. List of published HIV-1 microRNAs and their target HIV-1 and cellular gene products.The target interactions of HIV-1 microRNAs with its mRNA seem to function as viral genome regulators.
VHID00005698	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-miR-TAR-5p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0006016	CD4+ T lymphocytes cells	-	Host	mRNA	IER3	http://www.ncbi.nlm.nih.gov/gene/8870	Downregulation	Luciferase assay.	22936931	Table 1 includes the RNAi pathway related gene products that are targeted by HIV-1 microRNAs. List of published HIV-1 microRNAs and their target HIV-1 and cellular gene products.The target interactions of HIV-1 microRNAs with its mRNA seem to function as viral genome regulators.
VHID00005699	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-H1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006106	Human blood mononuclear cells	-	Host	Protein	AATF	http://www.ncbi.nlm.nih.gov/gene/26574	Downregulation	FACS analysis, trypan-blue dye exclusion method, microarray analysis, Real-Time PCR, Bioinformatic analysis.	19082544	There cent discovery of HIV-1 genome-encoded novel microRNA(miRNA; designated as hiv1-mir-H1) having ability to target selectively and specifically human cellular AATF gene.
VHID00005700	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-H1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006106	Human blood mononuclear cells	-	Host	Protein	BCL2	http://www.ncbi.nlm.nih.gov/gene/596	Downregulation	FACS analysis, trypan-blue dye exclusion method, microarray analysis, Real-Time PCR, Bioinformatic analysis.	19082544	There cent discovery of HIV-1 genome-encoded novel microRNA(miRNA; designated as hiv1-mir-H1) having ability to target selectively and specifically human cellular AATF gene, prompted us to explore the role of this miRNA in the regulation of genes involved in cellular apoptosis, proliferation and nucleic acid-based immune mechanism governed by miRNAs. Such a study revealed that this miRNA-induced knockdown of AATF gene, within normal human blood mononuclear cells, was responsible for the suppression of genes coding for Bcl-2, c-myc, Par-4 and Dicer.
VHID00005701	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-H1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006106	Human blood mononuclear cells	-	Host	Protein	DICER	http://www.ncbi.nlm.nih.gov/gene/23405	Downregulation	FACS analysis, trypan-blue dye exclusion method, microarray analysis, Real-Time PCR, Bioinformatic analysis.	19082544	There cent discovery of HIV-1 genome-encoded novel microRNA(miRNA; designated as hiv1-mir-H1) having ability to target selectively and specifically human cellular AATF gene, prompted us to explore the role of this miRNA in the regulation of genes involved in cellular apoptosis, proliferation and nucleic acid-based immune mechanism governed by miRNAs. Such a study revealed that this miRNA-induced knockdown of AATF gene, within normal human blood mononuclear cells, was responsible for the suppression of genes coding for Bcl-2, c-myc, Par-4 and Dicer.
VHID00005702	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-H1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006106	Human blood mononuclear cells	-	Host	Protein	MYC( c-Myc)	http://www.ncbi.nlm.nih.gov/gene/4609	Downregulation	FACS analysis, trypan-blue dye exclusion method, microarray analysis, Real-Time PCR, Bioinformatic analysis.	19082544	There cent discovery of HIV-1 genome-encoded novel microRNA(miRNA; designated as hiv1-mir-H1) having ability to target selectively and specifically human cellular AATF gene, prompted us to explore the role of this miRNA in the regulation of genes involved in cellular apoptosis, proliferation and nucleic acid-based immune mechanism governed by miRNAs. Such a study revealed that this miRNA-induced knockdown of AATF gene, within normal human blood mononuclear cells, was responsible for the suppression of genes coding for Bcl-2, c-myc, Par-4 and Dicer.
VHID00005703	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-H1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006106	Human blood mononuclear cells	-	Host	Protein	PAWR(Par-4)	http://www.ncbi.nlm.nih.gov/gene/5074	Downregulation	FACS analysis, trypan-blue dye exclusion method, microarray analysis, Real-Time PCR, Bioinformatic analysis.	19082544	Such a study revealed that this miRNA-induced knockdown of AATF gene, within normal human blood mononuclear cells, was responsible for the suppression of genes coding for Bcl-2, c-myc, Par-4 and Dicer.
VHID00005704	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-H1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006106	Human blood mononuclear cells	-	Host	miRNA	hsa-mir-149(miR149)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000478	Downregulation	FACS analysis, trypan-blue dye exclusion method, microarray analysis, Real-Time PCR, Bioinformatic analysis.	19082544	Hiv1-mir-H1 had the capacity to downregulate expression of cellular miR149 gene recognized to target Vpr gene encoded by HIV-2.
VHID00005705	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	293T cells	-	Host	Protein	DICER1(Dicer)	http://www.ncbi.nlm.nih.gov/gene/23405	Downregulation	Luciferase reporter, immunofluorescence, RT-PCR.	21133815	It has also been demonstrated by ethidium bromide staining and radioactive labeling that the TAR--Dicer association results in cleavage of the TAR RNA.
VHID00005706	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	293T cells	-	Host	Protein	ERCC1	http://www.ncbi.nlm.nih.gov/gene/2067	Upregulation	Luciferase reporter, immunofluorescence, RT-PCR.	21133815	Microarray analysis of RNA isolated from TAR transfected cells using an Affymetrix human focus array identified 18 human genes that were downregulated and 14 genes that were upregulated. Further validation of four of these genes showed possible links to apoptosis and cell survival including ERCC1 (excision repair cross complementing-group 1), PIASg (protein inhibitor of acti-vated STATg), GIT2 (GPCR interacting protein) and IER3 (intermediate early response 3).
VHID00005707	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	293T cells	-	Host	Protein	GIT2	http://www.ncbi.nlm.nih.gov/gene/9815	Upregulation	Luciferase reporter, immunofluorescence, RT-PCR.	21133815	Microarray analysis of RNA isolated from TAR transfected cells using an Affymetrix human focus array identified 18 human genes that were downregulated and 14 genes that were upregulated. Further validation of four of these genes showed possible links to apoptosis and cell survival including ERCC1 (excision repair cross complementing-group 1), PIASg (protein inhibitor of acti-vated STATg), GIT2 (GPCR interacting protein) and IER3 (intermediate early response 3).
VHID00005708	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	293T cells	-	Host	Protein	HDAC1	http://www.ncbi.nlm.nih.gov/gene/3065	Downregulation	Luciferase reporter, immunofluorescence, RT-PCR.	21133815	This recruitment of HDAC-1 to the HIV-1 LTR by the TAR element suggested that the TAR element is capable of transcriptional silencing via the RITS mechanism.The article provides insights into TAR miRNA-mediated downregulation of viral and host gene expression by recruitment of chromatin remodeling components(HDAC1).
VHID00005709	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	293T cells	-	Host	Protein	IER3	http://www.ncbi.nlm.nih.gov/gene/8870	Upregulation	Luciferase reporter, immunofluorescence, RT-PCR.	21133815	Microarray analysis of RNA isolated from TAR transfected cells using an Affymetrix human focus array identified 18 human genes that were downregulated and 14 genes that were upregulated. Further validation of four of these genes showed possible links to apoptosis and cell survival including ERCC1 (excision repair cross complementing-group 1), PIASg (protein inhibitor of acti-vated STATg), GIT2 (GPCR interacting protein) and IER3 (intermediate early response 3).
VHID00005710	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	293T cells	-	Host	Protein	PIAS4(PIASg)	http://www.ncbi.nlm.nih.gov/gene/51588	Upregulation	Luciferase reporter, immunofluorescence, RT-PCR.	21133815	Microarray analysis of RNA isolated from TAR transfected cells using an Affymetrix human focus array identified 18 human genes that were downregulated and 14 genes that were upregulated. Further validation of four of these genes showed possible links to apoptosis and cell survival including ERCC1 (excision repair cross complementing-group 1), PIASg (protein inhibitor of acti-vated STATg), GIT2 (GPCR interacting protein) and IER3 (intermediate early response 3).
VHID00005711	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(hiv1-miR-TAR-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	CD4+ T lymphocytes	-	Host	mRNA	ERCC1	http://www.ncbi.nlm.nih.gov/gene/2067	Downregulation	Western blots, RT-PCR, Affymetrix MicroArray analysis.	19220914	Specifically, the microRNA down-regulates ERCC1 and IER3, protecting the cell from apoptosis. Comparison to our cloned sequence reveals possible target sites for the TAR miRNA as well.
VHID00005712	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(hiv1-miR-TAR-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	CD4+ T lymphocytes	-	Host	mRNA	IER3	http://www.ncbi.nlm.nih.gov/gene/8870	Downregulation	Western blots, RT-PCR, Affymetrix MicroArray analysis.	19220914	Specifically, the microRNA down-regulates ERCC1 and IER3, protecting the cell from apoptosis. Comparison to our cloned sequence reveals possible target sites for the TAR miRNA as well.
VHID00005713	Human immunodeficiency virus 1(HIV-1)	Mus musculus	Virus	miRNA	hiv1-miR-N367(miR-N367)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006104	Jurkat T cells	-	Host	Protein	Tnip1(nef)	http://www.ncbi.nlm.nih.gov/gene/57783	Downregulation	Luciferase reporter, immunofluorescence, RT-PCR.	21133815	Using EGFP and luciferase reporter constructs downstream of the nef target, nef miRNAs have been shown to downregulate nef expression in Jurkat T cells.Impressively,the nef miRNA (miR-N367) was effectively able to downregulate nef expression in the subcapsular regions of the spleen in mice, as determined by immunofluorescence and RT-PCR assays.
VHID00005714	Human immunodeficiency virus 1(HIV-1)	Mus musculus	Virus	miRNA	nef	#	MT-4 T cells	-	Host	Protein	Pparg(PPAR-gamma)	http://www.ncbi.nlm.nih.gov/gene/19016	Downregulation	Luciferase reporter, immunofluorescence, RT-PCR.	21133815	One of the downstream targets of nef is PPAR-gamma and nef suppresses PPAR-gamma expression. In mice expressing nef miRNA, significant suppression of PPAR-gamma expression was seen in the intestinal adipose tissue.
VHID00005715	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	LncRNA	PAN	#	-	-	Host	Protein	PABPC1	http://www.ncbi.nlm.nih.gov/gene/26986	Downregulation	Western blot,Immunoprecipitation(IP),CLIP.	23077296	During KSHV lytic infection, the expression of viral ORF57 leads to a substantial decrease in overall PABPC1 expression, along with a shift in the cellular distribution of the remaining PABPC1 to the nucleus. Together, these data indicate that PABPC1 is an important cellular target of viral ORF57 to directly upregulate PAN accumulation during viral lytic infection, and the ability of host PABPC1 to disrupt ORF57 expression is a strategic host counterbalancing mechanism.
VHID00005716	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	LncRNA	PAN	#	293L cells	-	Host	Protein	KDM6A(UTX)	http://www.ncbi.nlm.nih.gov/gene/7403	Downregulation	Chromatin Immunoprecipitation (ChIP), Real-time PCR, RNA Cross-Linking Immunoprecipitation (RNA CLIP), Chromatin Isolation by RNA Purification (ChIRP), RNA chromatin immunoprecipitation assays, Southern blot analysis.	22589717	To investigate the role of PAN RNA in the activation of K-Rta expression, we demonstrate that PAN RNA physically interacts with the ORF50 promoter. RNA chromatin immunoprecipitation assays show that PAN RNA interacts with demethylases JMJD3 and UTX, and the histone methyltransferase MLL2. Consistent with the interaction with demethylases, expression of PAN RNA results in a decrease of the repressive H3K27me3 mark at the ORF50 promoter.
VHID00005717	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	LncRNA	PAN	#	293L cells	-	Host	Protein	KDM6B(JMJD3)	http://www.ncbi.nlm.nih.gov/gene/23135	Downregulation	Chromatin Immunoprecipitation (ChIP), Real-time PCR, RNA Cross-Linking Immunoprecipitation (RNA CLIP), Chromatin Isolation by RNA Purification (ChIRP), RNA chromatin immunoprecipitation assays, Southern blot analysis.	22589717	To investigate the role of PAN RNA in the activation of K-Rta expression, we demonstrate that PAN RNA physically interacts with the ORF50 promoter. RNA chromatin immunoprecipitation assays show that PAN RNA interacts with demethylases JMJD3 and UTX, and the histone methyltransferase MLL2. Consistent with the interaction with demethylases, expression of PAN RNA results in a decrease of the repressive H3K27me3 mark at the ORF50 promoter.
VHID00005718	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	LncRNA	PAN	#	293L cells	-	Host	Protein	KMT2B(MLL2)	http://www.ncbi.nlm.nih.gov/gene/9757	Downregulation	Chromatin Immunoprecipitation (ChIP), Real-time PCR, RNA Cross-Linking Immunoprecipitation (RNA CLIP), Chromatin Isolation by RNA Purification (ChIRP), RNA chromatin immunoprecipitation assays, Southern blot analysis.	22589717	To investigate the role of PAN RNA in the activation of K-Rta expression, we demonstrate that PAN RNA physically interacts with the ORF50 promoter. RNA chromatin immunoprecipitation assays show that PAN RNA interacts with demethylases JMJD3 and UTX, and the histone methyltransferase MLL2. Consistent with the interaction with demethylases, expression of PAN RNA results in a decrease of the repressive H3K27me3 mark at the ORF50 promoter.
VHID00005719	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	LncRNA	PAN	#	HEK293 cell lines	Upregulation	Host	Protein	PABPC1	http://www.ncbi.nlm.nih.gov/gene/26986	-	Luciferase assays,Immunoprecipitation,CLIP.	23077296	We report that PABPC1 forms a complex with the Kaposi's sarcoma-associated herpesvirus(KSHV) ORF57 protein, which allows ORF57 to interact with a 9-nucleotide(nt) core element of KSHV polyadenylated nuclear(PAN) RNA, a viral long noncoding RNA(LncRNA), and increase PAN stability. These data indicate that PABPC1 is an important cellular target of viral ORF57 to directly upregulate PAN accumulation during viral lytic infection, and the ability of host PABPC1 to disrupt ORF57 expression is a strategic host counterbalancing mechanism.
VHID00005720	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	ANKRD52	http://www.ncbi.nlm.nih.gov/gene/283373	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005721	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	ARRDC3	http://www.ncbi.nlm.nih.gov/gene/57561	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005722	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	C1orf55	http://www.ncbi.nlm.nih.gov/gene/163859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005723	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	C20orf11	http://www.ncbi.nlm.nih.gov/gene/54994	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005724	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	C21orf91	http://www.ncbi.nlm.nih.gov/gene/54149	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005725	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	C2orf72	http://www.ncbi.nlm.nih.gov/gene/257407	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005726	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	CCND2	http://www.ncbi.nlm.nih.gov/gene/894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005727	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	CCNL2	http://www.ncbi.nlm.nih.gov/gene/1235	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005728	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	CDV3	http://www.ncbi.nlm.nih.gov/gene/55573	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005729	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	CPEB3	http://www.ncbi.nlm.nih.gov/gene/22849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005730	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	CREB1	http://www.ncbi.nlm.nih.gov/gene/1385	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005731	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	DBT	http://www.ncbi.nlm.nih.gov/gene/1629	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005732	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	DENND1B	http://www.ncbi.nlm.nih.gov/gene/163486	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005733	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	EDEM3	http://www.ncbi.nlm.nih.gov/gene/80267	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005734	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	FAM102B	http://www.ncbi.nlm.nih.gov/gene/284611	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005735	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	FAM116A	http://www.ncbi.nlm.nih.gov/gene/201627	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005736	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	FZD5	http://www.ncbi.nlm.nih.gov/gene/7855	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005737	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	HMGCR	http://www.ncbi.nlm.nih.gov/gene/3156	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005738	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	KLHL8	http://www.ncbi.nlm.nih.gov/gene/57563	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005739	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	LARP4	http://www.ncbi.nlm.nih.gov/gene/113251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005740	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	LMNB1	http://www.ncbi.nlm.nih.gov/gene/4001	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005741	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	MAGEB1	http://www.ncbi.nlm.nih.gov/gene/4112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005742	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	MCL1	http://www.ncbi.nlm.nih.gov/gene/4170	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005743	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	MTHFD2	http://www.ncbi.nlm.nih.gov/gene/10797	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005744	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	NFAT5	http://www.ncbi.nlm.nih.gov/gene/10725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005745	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	NFIA	http://www.ncbi.nlm.nih.gov/gene/4774	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005746	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	OIP5	http://www.ncbi.nlm.nih.gov/gene/11339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005747	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	PDHX	http://www.ncbi.nlm.nih.gov/gene/8050	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005748	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	PHACTR4	http://www.ncbi.nlm.nih.gov/gene/65979	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005749	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	PPM1D	http://www.ncbi.nlm.nih.gov/gene/8493	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005750	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	QKI	http://www.ncbi.nlm.nih.gov/gene/9444	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005751	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	RIMS3	http://www.ncbi.nlm.nih.gov/gene/9783	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005752	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	RNASEL	http://www.ncbi.nlm.nih.gov/gene/6041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005753	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	SESN1	http://www.ncbi.nlm.nih.gov/gene/27244	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005754	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	SETD5	http://www.ncbi.nlm.nih.gov/gene/55209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005755	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	SLC35B2	http://www.ncbi.nlm.nih.gov/gene/347734	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005756	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	TMEM25	http://www.ncbi.nlm.nih.gov/gene/84866	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005757	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	TNRC18B	http://www.ncbi.nlm.nih.gov/gene/27320	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005758	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	TRAM2	http://www.ncbi.nlm.nih.gov/gene/9697	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005759	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	TSC22D3	http://www.ncbi.nlm.nih.gov/gene/23151	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005760	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	UNC84A	http://www.ncbi.nlm.nih.gov/gene/23353 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005761	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	WDFY1	http://www.ncbi.nlm.nih.gov/gene/57590	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005762	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	ZNF517	http://www.ncbi.nlm.nih.gov/gene/340385	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005763	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-1	-	Host	mRNA	ZNF701	http://www.ncbi.nlm.nih.gov/gene/55762	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005764	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	C2orf72	http://www.ncbi.nlm.nih.gov/gene/257407	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005765	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	CCND2	http://www.ncbi.nlm.nih.gov/gene/894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005766	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	CDC37L1	http://www.ncbi.nlm.nih.gov/gene/55664	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005767	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	CDV3	http://www.ncbi.nlm.nih.gov/gene/55573	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005768	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	CUX1	http://www.ncbi.nlm.nih.gov/gene/1523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005769	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	FAM116A	http://www.ncbi.nlm.nih.gov/gene/201627	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005770	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	HMGCR	http://www.ncbi.nlm.nih.gov/gene/3156	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005771	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	KLHL8	http://www.ncbi.nlm.nih.gov/gene/57563	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005772	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	LMNB1	http://www.ncbi.nlm.nih.gov/gene/4001	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005773	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	MAGEB1	http://www.ncbi.nlm.nih.gov/gene/4112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005774	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	MCL1	http://www.ncbi.nlm.nih.gov/gene/4170	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005775	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	MTHFD2	http://www.ncbi.nlm.nih.gov/gene/10797	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005776	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	OIP5	http://www.ncbi.nlm.nih.gov/gene/11339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005777	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	PDHX	http://www.ncbi.nlm.nih.gov/gene/8050	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005778	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	Protein	CDKN1A(cyclin-dependent kinase inhibitor p21)	http://www.ncbi.nlm.nih.gov/gene/1026	-	Cell cycle experiments, Western blotting and qRT-PCR, Indicator assays and primer extensions, Cell culture and generation of viral transductants, qPCR analysis of KSHV genome content.	20219912	Here, we report that cellular mRNAs encoding the cellular cyclin-dependent kinase inhibitor p21, a key inducer of cell cycle arrest, are direct targets for KSHV miR-K1. Ectopically expressed KSHV miR-K1 specifically inhibited the expression of endogenous p21 in KSHV-negative cells and strongly attenuated the cell cycle arrest that normally occurs upon p53 activation.
VHID00005779	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	Protein	IkappaBalpha	http://www.ncbi.nlm.nih.gov/gene/4790	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00005780	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	RNASEL	http://www.ncbi.nlm.nih.gov/gene/6041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005781	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	SNX11	http://www.ncbi.nlm.nih.gov/gene/29916	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005782	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-1-3p(miR-K1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015214	BC-3	-	Host	mRNA	ZNF517	http://www.ncbi.nlm.nih.gov/gene/340385	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005783	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a(miR-K10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BJAB and BCBL-3 cells	-	Host	Protein	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	Downregulation	Immunoblotting and apoptosis, Luciferase assays, Sequence Analysis, Microarray data, miRNA expression.	19098914	The functional consequence of this downregulation for KSHV latency can be assessed by examining the effects of BCLAF1 modulation on viral replication. When latently infected cells are chemically induced to lytic KSHV growth, antagonism of miRs K5,9, 10a and 10b is associated with decreased virion production (Fig. 5a) and increased BCLAF1 expression (Fig. 5c). This suggests that BCLAF1 action acts to impair lytic viral replication.
VHID00005784	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a(miR-K10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	-	3'UTR  indicator assays ,RIP-CHIP.	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00005785	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	-	-	Host	Protein	TNFRSF12A	http://www.ncbi.nlm.nih.gov/gene/51330	Downregulation	Luciferase assays, Quantitative RT-PCR assays for cytokine expression, Western blot analysis, Statistical analysis, Caspase activation assay.	20844036	TWEAKR was one of the top predicted targets for KSHV miR-K12-10a (miR-K10a) based on expression changes. In this report, we validate TWEAKR as a target of miR-K10a.TWEAKR (also known as Fn14, TNFRSF12A, or CD266).The expression of TWEAKR was downregulated in cells transfected with miR-K10a as well as during de novo KSHV infection.
VHID00005786	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	AADACL1	http://www.ncbi.nlm.nih.gov/gene/57552 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005787	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	C10orf18	http://www.ncbi.nlm.nih.gov/gene/54906	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005788	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	CBX6	http://www.ncbi.nlm.nih.gov/gene/23466	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005789	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	CLUAP1	http://www.ncbi.nlm.nih.gov/gene/23059	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005790	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	DNAJC16	http://www.ncbi.nlm.nih.gov/gene/23341	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005791	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	EARS2	http://www.ncbi.nlm.nih.gov/gene/124454	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005792	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	EXOC1	http://www.ncbi.nlm.nih.gov/gene/55763	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005793	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	FOXJ3	http://www.ncbi.nlm.nih.gov/gene/22887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005794	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	FOXK2	http://www.ncbi.nlm.nih.gov/gene/3607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005795	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	FTO	http://www.ncbi.nlm.nih.gov/gene/79068	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005796	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	GIT2	http://www.ncbi.nlm.nih.gov/gene/9815	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005797	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	IRF9	http://www.ncbi.nlm.nih.gov/gene/10379	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005798	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	ITPR3	http://www.ncbi.nlm.nih.gov/gene/3710	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005799	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	LASS6	http://www.ncbi.nlm.nih.gov/gene/253782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005800	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	MAML2	http://www.ncbi.nlm.nih.gov/gene/84441	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005801	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	MAP2K4	http://www.ncbi.nlm.nih.gov/gene/6416	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005802	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	MKNK2	http://www.ncbi.nlm.nih.gov/gene/2872	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005803	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	MLL2	http://www.ncbi.nlm.nih.gov/gene/8085	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005804	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	PHC3	http://www.ncbi.nlm.nih.gov/gene/80012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005805	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	PLS3	http://www.ncbi.nlm.nih.gov/gene/5358	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005806	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	POMP	http://www.ncbi.nlm.nih.gov/gene/51371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005807	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	PTAR1	http://www.ncbi.nlm.nih.gov/gene/375743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005808	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	SERPINB9	http://www.ncbi.nlm.nih.gov/gene/5272	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005809	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	SETD5	http://www.ncbi.nlm.nih.gov/gene/55209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005810	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	SIK2	http://www.ncbi.nlm.nih.gov/gene/23235	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005811	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	SLTM	http://www.ncbi.nlm.nih.gov/gene/79811	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005812	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	TFIP11	http://www.ncbi.nlm.nih.gov/gene/24144	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005813	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	TNFSF9	http://www.ncbi.nlm.nih.gov/gene/8744	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005814	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	UBN2	http://www.ncbi.nlm.nih.gov/gene/254048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005815	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	ULK1	http://www.ncbi.nlm.nih.gov/gene/8408	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005816	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	UNK	http://www.ncbi.nlm.nih.gov/gene/85451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005817	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	WAC	http://www.ncbi.nlm.nih.gov/gene/51322	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005818	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	WDR82	http://www.ncbi.nlm.nih.gov/gene/80335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005819	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	ZNF142	http://www.ncbi.nlm.nih.gov/gene/7701	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005820	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	ZNF275	http://www.ncbi.nlm.nih.gov/gene/10838	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005821	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10a-5p(miR-K10a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015212	BC-3	-	Host	mRNA	ZNF330	http://www.ncbi.nlm.nih.gov/gene/27309	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005822	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10b(miR-K10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BJAB and BCBL-3 cells	-	Host	Protein	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	Downregulation	Immunoblotting and apoptosis, Luciferase assays, Sequence Analysis, Microarray data, miRNA expression.	19098914	The functional consequence of this downregulation for KSHV latency can be assessed by examining the effects of BCLAF1 modulation on viral replication. When latently infected cells are chemically induced to lytic KSHV growth, antagonism of miRs K5,9, 10a and 10b is associated with decreased virion production (Fig. 5a) and increased BCLAF1 expression (Fig. 5c). This suggests that BCLAF1 action acts to impair lytic viral replication.
VHID00005823	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10b(miR-K10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	-	3'UTR  indicator assays ,RIP-CHIP.	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00005824	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	-	-	Host	Protein	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00005825	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	AGTRAP	http://www.ncbi.nlm.nih.gov/gene/57085	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00005826	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00005827	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	IKBKE	http://www.ncbi.nlm.nih.gov/gene/9641	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00005828	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	PIK3CA	http://www.ncbi.nlm.nih.gov/gene/5290	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00005829	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	RFK	http://www.ncbi.nlm.nih.gov/gene/55312	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00005830	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	RPS6KA3	http://www.ncbi.nlm.nih.gov/gene/6197	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00005831	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	SAMHD1	http://www.ncbi.nlm.nih.gov/gene/25939	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00005832	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	SLA	http://www.ncbi.nlm.nih.gov/gene/6503	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00005833	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	TWF1	http://www.ncbi.nlm.nih.gov/gene/5756	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00005834	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	XAF1	http://www.ncbi.nlm.nih.gov/gene/54739	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00005835	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	B-cell	-	Host	mRNA	BRIP1(BACH-1)	http://www.ncbi.nlm.nih.gov/gene/83990	Downregulation	Luciferase assays,Northern blot analysis,Microarray.	17881434	Bioinformatic tools predicted the transcriptional repressor BACH-1 to be targeted by both miRNAs, and ectopic expression of either miR-155 or miR-K12-11 inhibited a BACH-1 3'UTR-containing reporter. Furthermore, BACH-1 protein levels are low in cells expressing either miRNA.
VHID00005836	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	AKT1	http://www.ncbi.nlm.nih.gov/gene/207	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005837	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	APOLD1	http://www.ncbi.nlm.nih.gov/gene/81575	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005838	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	ARPC4	http://www.ncbi.nlm.nih.gov/gene/26140	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005839	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	BCORL1	http://www.ncbi.nlm.nih.gov/gene/63035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005840	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	BECN1	http://www.ncbi.nlm.nih.gov/gene/8678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005841	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	BSN	http://www.ncbi.nlm.nih.gov/gene/8927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005842	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	C12orf4	http://www.ncbi.nlm.nih.gov/gene/283461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005843	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	C1orf128	http://www.ncbi.nlm.nih.gov/gene/57095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005844	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	C6orf120	http://www.ncbi.nlm.nih.gov/gene/387263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005845	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	C8orf38	http://www.ncbi.nlm.nih.gov/gene/137682	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005846	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	CAMSAP1L1	http://www.ncbi.nlm.nih.gov/gene/23271	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005847	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	CBX3	http://www.ncbi.nlm.nih.gov/gene/11335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005848	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005849	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	CD48	http://www.ncbi.nlm.nih.gov/gene/962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005850	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	CRY2	http://www.ncbi.nlm.nih.gov/gene/1408	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005851	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	CSTF2	http://www.ncbi.nlm.nih.gov/gene/1478	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005852	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	DCBLD2	http://www.ncbi.nlm.nih.gov/gene/131566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005853	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	DCP2	http://www.ncbi.nlm.nih.gov/gene/167227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005854	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	DGKE	http://www.ncbi.nlm.nih.gov/gene/8526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005855	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	EFHD2	http://www.ncbi.nlm.nih.gov/gene/79180	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005856	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	ETNK1	http://www.ncbi.nlm.nih.gov/gene/55500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005857	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	EYA4	http://www.ncbi.nlm.nih.gov/gene/2070	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005858	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	FAM126B	http://www.ncbi.nlm.nih.gov/gene/285172	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005859	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	FAM49B	http://www.ncbi.nlm.nih.gov/gene/51571	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005860	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	FBXO3	http://www.ncbi.nlm.nih.gov/gene/26273	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005861	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	FOXP2	http://www.ncbi.nlm.nih.gov/gene/93986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005862	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	GATAD1	http://www.ncbi.nlm.nih.gov/gene/57798	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005863	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	GBP3	http://www.ncbi.nlm.nih.gov/gene/2635	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005864	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	GLCCI1	http://www.ncbi.nlm.nih.gov/gene/113263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005865	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	GNB1	http://www.ncbi.nlm.nih.gov/gene/2782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005866	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	GSPT1	http://www.ncbi.nlm.nih.gov/gene/2935	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005867	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	HECA	http://www.ncbi.nlm.nih.gov/gene/51696	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005868	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	HMGXB4	http://www.ncbi.nlm.nih.gov/gene/10042	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005869	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	HOXC6	http://www.ncbi.nlm.nih.gov/gene/3223	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005870	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	IKZF3	http://www.ncbi.nlm.nih.gov/gene/22806	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005871	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	IL2RB	http://www.ncbi.nlm.nih.gov/gene/3560	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005872	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	JMY	http://www.ncbi.nlm.nih.gov/gene/133746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005873	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	KIF2A	http://www.ncbi.nlm.nih.gov/gene/3796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005874	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	MBD2	http://www.ncbi.nlm.nih.gov/gene/8932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005875	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	MCL1	http://www.ncbi.nlm.nih.gov/gene/4170	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005876	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	MED20	http://www.ncbi.nlm.nih.gov/gene/9477	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005877	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	MESDC2	http://www.ncbi.nlm.nih.gov/gene/23184	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005878	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	MTMR6	http://www.ncbi.nlm.nih.gov/gene/9107	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005879	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	MTPN	http://www.ncbi.nlm.nih.gov/gene/767558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005880	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	MYB	http://www.ncbi.nlm.nih.gov/gene/4602	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005881	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	NHLRC2	http://www.ncbi.nlm.nih.gov/gene/374354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005882	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	NLN	http://www.ncbi.nlm.nih.gov/gene/57486	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005883	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	NUPL1	http://www.ncbi.nlm.nih.gov/gene/9818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005884	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	ODF2L	http://www.ncbi.nlm.nih.gov/gene/57489	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005885	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	PDE7A	http://www.ncbi.nlm.nih.gov/gene/5150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005886	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	PGAP1	http://www.ncbi.nlm.nih.gov/gene/80055	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005887	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	PI4KB	http://www.ncbi.nlm.nih.gov/gene/5298	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005888	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	PLAG1	http://www.ncbi.nlm.nih.gov/gene/5324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005889	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	POLR1D	http://www.ncbi.nlm.nih.gov/gene/51082	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005890	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	PPAP2B	http://www.ncbi.nlm.nih.gov/gene/8613	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005891	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	PPP1CB	http://www.ncbi.nlm.nih.gov/gene/245711	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005892	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	PPP1R2	http://www.ncbi.nlm.nih.gov/gene/5504	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005893	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	PPP4R2	http://www.ncbi.nlm.nih.gov/gene/151987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005894	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	PRICKLE4	http://www.ncbi.nlm.nih.gov/gene/29964	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005895	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	PRR3	http://www.ncbi.nlm.nih.gov/gene/80742	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005896	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	RAB2B	http://www.ncbi.nlm.nih.gov/gene/84932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005897	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	RAB3IP	http://www.ncbi.nlm.nih.gov/gene/117177	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005898	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	RASSF8	http://www.ncbi.nlm.nih.gov/gene/11228	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005899	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	RFX7	http://www.ncbi.nlm.nih.gov/gene/64864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005900	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	RGL2	http://www.ncbi.nlm.nih.gov/gene/5863	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005901	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	SAMD9L	http://www.ncbi.nlm.nih.gov/gene/219285	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005902	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	SASS6	http://www.ncbi.nlm.nih.gov/gene/163786	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005903	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	SCRIB	http://www.ncbi.nlm.nih.gov/gene/23513	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005904	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	SDHAF1	http://www.ncbi.nlm.nih.gov/gene/644096	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005905	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	SEC24A	http://www.ncbi.nlm.nih.gov/gene/10802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005906	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	SLC11A2	http://www.ncbi.nlm.nih.gov/gene/4891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005907	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	SLC35D1	http://www.ncbi.nlm.nih.gov/gene/23169	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005908	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	SLC35F5	http://www.ncbi.nlm.nih.gov/gene/80255	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005909	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	SNRNP27	http://www.ncbi.nlm.nih.gov/gene/11017	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005910	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	SNW1	http://www.ncbi.nlm.nih.gov/gene/22938	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005911	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	SPIN1	http://www.ncbi.nlm.nih.gov/gene/10927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005912	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	SYT4	http://www.ncbi.nlm.nih.gov/gene/6860	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005913	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	TBL1XR1	http://www.ncbi.nlm.nih.gov/gene/79718	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005914	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	TCEB3	http://www.ncbi.nlm.nih.gov/gene/6924	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005915	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	TERF1	http://www.ncbi.nlm.nih.gov/gene/646316	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005916	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	TGS1	http://www.ncbi.nlm.nih.gov/gene/96764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005917	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	THUMPD1	http://www.ncbi.nlm.nih.gov/gene/55623	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005918	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	TM9SF3	http://www.ncbi.nlm.nih.gov/gene/56889	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005919	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	TMEM30A	http://www.ncbi.nlm.nih.gov/gene/55754	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005920	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	TNRC6A	http://www.ncbi.nlm.nih.gov/gene/27327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005921	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	TPD52	http://www.ncbi.nlm.nih.gov/gene/7163	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005922	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	TRIM32	http://www.ncbi.nlm.nih.gov/gene/22954	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005923	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	USP31	http://www.ncbi.nlm.nih.gov/gene/57478	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005924	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	XPO5	http://www.ncbi.nlm.nih.gov/gene/57510	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005925	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	ZFP82	http://www.ncbi.nlm.nih.gov/gene/284406	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005926	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-1	-	Host	mRNA	ZMAT3	http://www.ncbi.nlm.nih.gov/gene/64393	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005927	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	AP3D1	http://www.ncbi.nlm.nih.gov/gene/8943	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005928	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	ARL5B	http://www.ncbi.nlm.nih.gov/gene/221079	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005929	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	ARPC4	http://www.ncbi.nlm.nih.gov/gene/26140	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005930	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	C1orf128	http://www.ncbi.nlm.nih.gov/gene/57095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005931	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	C6orf120	http://www.ncbi.nlm.nih.gov/gene/387263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005932	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	C8orf73	http://www.ncbi.nlm.nih.gov/gene/642475	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005933	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	CBFA2T2	http://www.ncbi.nlm.nih.gov/gene/9139	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005934	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005935	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	CD48	http://www.ncbi.nlm.nih.gov/gene/962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005936	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	DCBLD2	http://www.ncbi.nlm.nih.gov/gene/131566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005937	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	DCP2	http://www.ncbi.nlm.nih.gov/gene/167227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005938	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	DGKE	http://www.ncbi.nlm.nih.gov/gene/8526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005939	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	EFHD2	http://www.ncbi.nlm.nih.gov/gene/79180	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005940	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	EIF2S3	http://www.ncbi.nlm.nih.gov/gene/1968	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005941	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	EYA4	http://www.ncbi.nlm.nih.gov/gene/2070	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005942	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	FAM49B	http://www.ncbi.nlm.nih.gov/gene/51571	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005943	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	FIP1L1	http://www.ncbi.nlm.nih.gov/gene/81608	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005944	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	FOXP2	http://www.ncbi.nlm.nih.gov/gene/93986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005945	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	GATAD1	http://www.ncbi.nlm.nih.gov/gene/57798	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005946	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	GOPC	http://www.ncbi.nlm.nih.gov/gene/57120	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005947	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	HEATR5A	http://www.ncbi.nlm.nih.gov/gene/25938	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005948	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	HECA	http://www.ncbi.nlm.nih.gov/gene/51696	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005949	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	HS3ST3B1	http://www.ncbi.nlm.nih.gov/gene/9953	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005950	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	HSPA14	http://www.ncbi.nlm.nih.gov/gene/51182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005951	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	IL2RB	http://www.ncbi.nlm.nih.gov/gene/3560	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005952	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	JMY	http://www.ncbi.nlm.nih.gov/gene/133746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005953	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	KIF2A	http://www.ncbi.nlm.nih.gov/gene/3796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005954	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	KTELC1	http://www.ncbi.nlm.nih.gov/gene/56983	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005955	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	MBD2	http://www.ncbi.nlm.nih.gov/gene/8932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005956	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	MBLAC2	http://www.ncbi.nlm.nih.gov/gene/153364	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005957	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	MCL1	http://www.ncbi.nlm.nih.gov/gene/4170	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005958	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	MTPN	http://www.ncbi.nlm.nih.gov/gene/767558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005959	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	MYB	http://www.ncbi.nlm.nih.gov/gene/4602	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005960	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	NLN	http://www.ncbi.nlm.nih.gov/gene/57486	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005961	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	PDE7A	http://www.ncbi.nlm.nih.gov/gene/5150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005962	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	PHTF2	http://www.ncbi.nlm.nih.gov/gene/57157	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005963	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	PLAG1	http://www.ncbi.nlm.nih.gov/gene/5324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005964	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	POFUT1	http://www.ncbi.nlm.nih.gov/gene/23509	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005965	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	PPAP2B	http://www.ncbi.nlm.nih.gov/gene/8613	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005966	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	PPP1CB	http://www.ncbi.nlm.nih.gov/gene/245711	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005967	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	PPP1R2	http://www.ncbi.nlm.nih.gov/gene/5504	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005968	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	PPP4R2	http://www.ncbi.nlm.nih.gov/gene/151987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005969	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	PRICKLE4	http://www.ncbi.nlm.nih.gov/gene/29964	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005970	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	RAB2B	http://www.ncbi.nlm.nih.gov/gene/84932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005971	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	RGL2	http://www.ncbi.nlm.nih.gov/gene/5863	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005972	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	SAMD9L	http://www.ncbi.nlm.nih.gov/gene/219285	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005973	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	SEC24A	http://www.ncbi.nlm.nih.gov/gene/10802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005974	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	SLC35A5	http://www.ncbi.nlm.nih.gov/gene/55032	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005975	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	SLC39A13	http://www.ncbi.nlm.nih.gov/gene/91252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005976	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	SNW1	http://www.ncbi.nlm.nih.gov/gene/22938	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005977	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	SNX11	http://www.ncbi.nlm.nih.gov/gene/29916	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005978	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	SOS1	http://www.ncbi.nlm.nih.gov/gene/6654	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005979	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	TBL1XR1	http://www.ncbi.nlm.nih.gov/gene/79718	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005980	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	TERF1	http://www.ncbi.nlm.nih.gov/gene/646316	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005981	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	TGOLN2	http://www.ncbi.nlm.nih.gov/gene/10618	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005982	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	TNRC6A	http://www.ncbi.nlm.nih.gov/gene/27327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005983	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	TRIM32	http://www.ncbi.nlm.nih.gov/gene/22954	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005984	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	TSLP	http://www.ncbi.nlm.nih.gov/gene/85480	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005985	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	USP31	http://www.ncbi.nlm.nih.gov/gene/57478	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005986	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	WDR1	http://www.ncbi.nlm.nih.gov/gene/9948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005987	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	ZNF588	http://www.ncbi.nlm.nih.gov/gene/51427	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005988	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-11-5p(miR-K11*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015213	BC-3	-	Host	mRNA	ZNF90	http://www.ncbi.nlm.nih.gov/gene/7643	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005989	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ANKLE1	http://www.ncbi.nlm.nih.gov/gene/126549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005990	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	AP2M1	http://www.ncbi.nlm.nih.gov/gene/1173	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005991	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ARID1A	http://www.ncbi.nlm.nih.gov/gene/8289	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005992	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ASXL1	http://www.ncbi.nlm.nih.gov/gene/171023	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005993	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ATP9A	http://www.ncbi.nlm.nih.gov/gene/10079	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005994	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	BAT1	http://www.ncbi.nlm.nih.gov/gene/7919	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005995	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	BIRC2	http://www.ncbi.nlm.nih.gov/gene/329	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005996	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	C9orf25	http://www.ncbi.nlm.nih.gov/gene/203259	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005997	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	CPNE8	http://www.ncbi.nlm.nih.gov/gene/144402	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005998	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	DCAKD	http://www.ncbi.nlm.nih.gov/gene/79877	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00005999	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	DCP1A	http://www.ncbi.nlm.nih.gov/gene/55802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006000	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	EPB41L4A	http://www.ncbi.nlm.nih.gov/gene/64097	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006001	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	EXOSC3	http://www.ncbi.nlm.nih.gov/gene/51010	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006002	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	FBN1	http://www.ncbi.nlm.nih.gov/gene/2200	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006003	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	FLYWCH1	http://www.ncbi.nlm.nih.gov/gene/84256	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006004	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	FOXP2	http://www.ncbi.nlm.nih.gov/gene/93986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006005	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	GANAB	http://www.ncbi.nlm.nih.gov/gene/23193	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006006	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	IGF1R	http://www.ncbi.nlm.nih.gov/gene/3480	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006007	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	KDM2A	http://www.ncbi.nlm.nih.gov/gene/22992	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006008	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	KIAA0494	http://www.ncbi.nlm.nih.gov/gene/9813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006009	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	KLHL18	http://www.ncbi.nlm.nih.gov/gene/23276	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006010	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	LARP4	http://www.ncbi.nlm.nih.gov/gene/113251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006011	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	LIX1L	http://www.ncbi.nlm.nih.gov/gene/128077	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006012	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	LPIN1	http://www.ncbi.nlm.nih.gov/gene/23175	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006013	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	LRRC59	http://www.ncbi.nlm.nih.gov/gene/55379	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006014	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	MAP2K4	http://www.ncbi.nlm.nih.gov/gene/6416	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006015	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	MAP7D1	http://www.ncbi.nlm.nih.gov/gene/55700	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006016	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	MOBKL2A	http://www.ncbi.nlm.nih.gov/gene/126308	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006017	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	MRRF	http://www.ncbi.nlm.nih.gov/gene/92399	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006018	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	NAT13	http://www.ncbi.nlm.nih.gov/gene/80218 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006019	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	NSD1	http://www.ncbi.nlm.nih.gov/gene/64324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006020	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	NUAK1	http://www.ncbi.nlm.nih.gov/gene/9891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006021	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	OAS2	http://www.ncbi.nlm.nih.gov/gene/4939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006022	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	PACS1	http://www.ncbi.nlm.nih.gov/gene/55690	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006023	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	PISD	http://www.ncbi.nlm.nih.gov/gene/23761	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006024	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	PNPLA6	http://www.ncbi.nlm.nih.gov/gene/10908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006025	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	PRC1	http://www.ncbi.nlm.nih.gov/gene/9055	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006026	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	PSAP	http://www.ncbi.nlm.nih.gov/gene/5660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006027	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	RBM23	http://www.ncbi.nlm.nih.gov/gene/55147	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006028	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	SCAMP2	http://www.ncbi.nlm.nih.gov/gene/10066	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006029	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	SEC24A	http://www.ncbi.nlm.nih.gov/gene/10802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006030	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	SETD5	http://www.ncbi.nlm.nih.gov/gene/55209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006031	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	SLC9A8	http://www.ncbi.nlm.nih.gov/gene/23315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006032	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	SPEN	http://www.ncbi.nlm.nih.gov/gene/23013	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006033	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	SPRED2	http://www.ncbi.nlm.nih.gov/gene/200734	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006034	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	SUMF2	http://www.ncbi.nlm.nih.gov/gene/25870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006035	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	TRAM2	http://www.ncbi.nlm.nih.gov/gene/9697	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006036	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	TRIM33	http://www.ncbi.nlm.nih.gov/gene/51592	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006037	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	TROVE2	http://www.ncbi.nlm.nih.gov/gene/6738	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006038	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	WDR34	http://www.ncbi.nlm.nih.gov/gene/89891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006039	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	WEE1	http://www.ncbi.nlm.nih.gov/gene/7465	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006040	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	WIZ	http://www.ncbi.nlm.nih.gov/gene/58525	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006041	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ZFC3H1	http://www.ncbi.nlm.nih.gov/gene/196441	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006042	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ZNF131	http://www.ncbi.nlm.nih.gov/gene/7690	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006043	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ZNF451	http://www.ncbi.nlm.nih.gov/gene/26036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006044	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ACTR2	http://www.ncbi.nlm.nih.gov/gene/10097	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006045	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ADAM10	http://www.ncbi.nlm.nih.gov/gene/102	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006046	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ANKIB1	http://www.ncbi.nlm.nih.gov/gene/54467	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006047	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ANKRD40	http://www.ncbi.nlm.nih.gov/gene/91369	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006048	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ANKRD50	http://www.ncbi.nlm.nih.gov/gene/57182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006049	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ARFGAP2	http://www.ncbi.nlm.nih.gov/gene/84364	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006050	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ARPP19	http://www.ncbi.nlm.nih.gov/gene/646227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006051	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ATF2	http://www.ncbi.nlm.nih.gov/gene/1386	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006052	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ATP6V0A2	http://www.ncbi.nlm.nih.gov/gene/23545	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006053	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	BAZ1B	http://www.ncbi.nlm.nih.gov/gene/9031	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006054	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	BTN3A3	http://www.ncbi.nlm.nih.gov/gene/10384	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006055	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	C10orf18	http://www.ncbi.nlm.nih.gov/gene/54906	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006056	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	C11orf58	http://www.ncbi.nlm.nih.gov/gene/10944	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006057	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	C14orf129	http://www.ncbi.nlm.nih.gov/gene/51527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006058	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	C14orf28	http://www.ncbi.nlm.nih.gov/gene/122525	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006059	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	C15orf23	http://www.ncbi.nlm.nih.gov/gene/90417	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006060	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	C20orf96	http://www.ncbi.nlm.nih.gov/gene/140680	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006061	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	C21orf91	http://www.ncbi.nlm.nih.gov/gene/54149	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006062	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	C22orf30	http://www.ncbi.nlm.nih.gov/gene/253143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006063	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	C3orf52	http://www.ncbi.nlm.nih.gov/gene/79669	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006064	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	C4orf34	http://www.ncbi.nlm.nih.gov/gene/201895	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006065	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	C5orf24	http://www.ncbi.nlm.nih.gov/gene/134553	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006066	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	C5orf30	http://www.ncbi.nlm.nih.gov/gene/90355	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006067	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	C6orf167	http://www.ncbi.nlm.nih.gov/gene/253714	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006068	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	C7orf44	http://www.ncbi.nlm.nih.gov/gene/55744	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006069	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	C7orf64	http://www.ncbi.nlm.nih.gov/gene/84060	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006070	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	C9orf40	http://www.ncbi.nlm.nih.gov/gene/55071	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006071	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CAMSAP1L1	http://www.ncbi.nlm.nih.gov/gene/23271	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006072	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CAV2	http://www.ncbi.nlm.nih.gov/gene/858	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006073	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CBX1	http://www.ncbi.nlm.nih.gov/gene/10951	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006074	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CCDC117	http://www.ncbi.nlm.nih.gov/gene/150275	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006075	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CCDC6	http://www.ncbi.nlm.nih.gov/gene/8030	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006076	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CCND2	http://www.ncbi.nlm.nih.gov/gene/894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006077	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CD200R1	http://www.ncbi.nlm.nih.gov/gene/131450	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006078	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CDC73	http://www.ncbi.nlm.nih.gov/gene/79577	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006079	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CDK6	http://www.ncbi.nlm.nih.gov/gene/1021	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006080	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CENPQ	http://www.ncbi.nlm.nih.gov/gene/55166	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006081	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CGRRF1	http://www.ncbi.nlm.nih.gov/gene/10668	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006082	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CHMP2B	http://www.ncbi.nlm.nih.gov/gene/25978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006083	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CKAP2	http://www.ncbi.nlm.nih.gov/gene/26586	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006084	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	COPS7A	http://www.ncbi.nlm.nih.gov/gene/50813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006085	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CPNE3	http://www.ncbi.nlm.nih.gov/gene/8895	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006086	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CRISPLD1	http://www.ncbi.nlm.nih.gov/gene/83690	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006087	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CSNK1G1	http://www.ncbi.nlm.nih.gov/gene/53944	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006088	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CSNK1G3	http://www.ncbi.nlm.nih.gov/gene/1456	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006089	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CSNK2A1	http://www.ncbi.nlm.nih.gov/gene/283106	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006090	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CUL3	http://www.ncbi.nlm.nih.gov/gene/8452	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006091	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	CYB561D1	http://www.ncbi.nlm.nih.gov/gene/284613	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006092	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	DCK	http://www.ncbi.nlm.nih.gov/gene/1633	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006093	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	DDI2	http://www.ncbi.nlm.nih.gov/gene/84301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006094	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	DFFA	http://www.ncbi.nlm.nih.gov/gene/1676	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006095	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	DHX15	http://www.ncbi.nlm.nih.gov/gene/1665	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006096	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	DIMT1L	http://www.ncbi.nlm.nih.gov/gene/27292	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006097	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	DIP2B	http://www.ncbi.nlm.nih.gov/gene/57609	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006098	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	DNAJC24	http://www.ncbi.nlm.nih.gov/gene/120526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006099	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	DNMT3A	http://www.ncbi.nlm.nih.gov/gene/1788	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006100	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	DONSON	http://www.ncbi.nlm.nih.gov/gene/29980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006101	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	DRAM1	http://www.ncbi.nlm.nih.gov/gene/55332	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006102	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	E2F7	http://www.ncbi.nlm.nih.gov/gene/144455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006103	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	EDEM3	http://www.ncbi.nlm.nih.gov/gene/80267	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006104	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	EGLN1	http://www.ncbi.nlm.nih.gov/gene/54583	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006105	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	EHD4	http://www.ncbi.nlm.nih.gov/gene/30844	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006106	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	EIF2C2	http://www.ncbi.nlm.nih.gov/gene/27161	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006107	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	EIF4A2	http://www.ncbi.nlm.nih.gov/gene/286512	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006108	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ELK4	http://www.ncbi.nlm.nih.gov/gene/2005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006109	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	EPC1	http://www.ncbi.nlm.nih.gov/gene/80314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006110	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	EPM2AIP1	http://www.ncbi.nlm.nih.gov/gene/9852	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006111	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ERO1L	http://www.ncbi.nlm.nih.gov/gene/30001	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006112	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ETNK1	http://www.ncbi.nlm.nih.gov/gene/55500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006113	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	F2R	http://www.ncbi.nlm.nih.gov/gene/2149	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006114	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	FAM105B	http://www.ncbi.nlm.nih.gov/gene/90268	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006115	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	FAR1	http://www.ncbi.nlm.nih.gov/gene/84188	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006116	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	FBXO22	http://www.ncbi.nlm.nih.gov/gene/26263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006117	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	FECH	http://www.ncbi.nlm.nih.gov/gene/2235	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006118	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	FEM1C	http://www.ncbi.nlm.nih.gov/gene/56929	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006119	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	FNDC3B	http://www.ncbi.nlm.nih.gov/gene/64778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006120	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	FOSL2	http://www.ncbi.nlm.nih.gov/gene/2355	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006121	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	FOXO3	http://www.ncbi.nlm.nih.gov/gene/2310	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006122	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	FXR1	http://www.ncbi.nlm.nih.gov/gene/8087	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006123	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	FZD6	http://www.ncbi.nlm.nih.gov/gene/8323	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006124	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	G3BP2	http://www.ncbi.nlm.nih.gov/gene/9908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006125	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	GOPC	http://www.ncbi.nlm.nih.gov/gene/57120	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006126	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	GPR141	http://www.ncbi.nlm.nih.gov/gene/353345	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006127	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	GSK3B	http://www.ncbi.nlm.nih.gov/gene/2932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006128	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	GTF2F1	http://www.ncbi.nlm.nih.gov/gene/2962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006129	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	GTF2H1	http://www.ncbi.nlm.nih.gov/gene/2965	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006130	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	HAT1	http://www.ncbi.nlm.nih.gov/gene/8520	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006131	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	HAUS5	http://www.ncbi.nlm.nih.gov/gene/23354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006132	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	HCFC2	http://www.ncbi.nlm.nih.gov/gene/29915	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006133	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	HECTD1	http://www.ncbi.nlm.nih.gov/gene/25831	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006134	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	HIST1H4D	http://www.ncbi.nlm.nih.gov/gene/8367	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006135	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	IER5	http://www.ncbi.nlm.nih.gov/gene/51278	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006136	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	IL6ST	http://www.ncbi.nlm.nih.gov/gene/3572	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006137	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	INO80D	http://www.ncbi.nlm.nih.gov/gene/54891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006138	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	IPMK	http://www.ncbi.nlm.nih.gov/gene/253430	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006139	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	IPO7	http://www.ncbi.nlm.nih.gov/gene/10527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006140	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	IRF1	http://www.ncbi.nlm.nih.gov/gene/3659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006141	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ITGAV	http://www.ncbi.nlm.nih.gov/gene/3685	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006142	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	KATNAL1	http://www.ncbi.nlm.nih.gov/gene/84056	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006143	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	KIAA0146	http://www.ncbi.nlm.nih.gov/gene/23514	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006144	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	KIAA0232	http://www.ncbi.nlm.nih.gov/gene/9778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006145	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	KIAA1211	http://www.ncbi.nlm.nih.gov/gene/57482	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006146	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	KIAA1244	http://www.ncbi.nlm.nih.gov/gene/57221	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006147	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	KLF3	http://www.ncbi.nlm.nih.gov/gene/51274	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006148	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	KLHDC10	http://www.ncbi.nlm.nih.gov/gene/23008	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006149	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	KLHL14	http://www.ncbi.nlm.nih.gov/gene/57565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006150	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	LANCL1	http://www.ncbi.nlm.nih.gov/gene/10314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006151	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	LBR	http://www.ncbi.nlm.nih.gov/gene/3930	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006152	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	LIN28B	http://www.ncbi.nlm.nih.gov/gene/389421	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006153	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	LPIN2	http://www.ncbi.nlm.nih.gov/gene/9663	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006154	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	LRRC57	http://www.ncbi.nlm.nih.gov/gene/255252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006155	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	LRRC59	http://www.ncbi.nlm.nih.gov/gene/55379	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006156	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	LUC7L2	http://www.ncbi.nlm.nih.gov/gene/51631	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006157	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	MAPK1	http://www.ncbi.nlm.nih.gov/gene/5594	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006158	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	MBNL1	http://www.ncbi.nlm.nih.gov/gene/4154	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006159	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	MBP	http://www.ncbi.nlm.nih.gov/gene/4155	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006160	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	MCFD2	http://www.ncbi.nlm.nih.gov/gene/90411	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006161	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	MED13	http://www.ncbi.nlm.nih.gov/gene/9969	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006162	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	MED13L	http://www.ncbi.nlm.nih.gov/gene/23389	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006163	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	MFAP3	http://www.ncbi.nlm.nih.gov/gene/4238	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006164	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	MGRN1	http://www.ncbi.nlm.nih.gov/gene/23295	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006165	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	MIER1	http://www.ncbi.nlm.nih.gov/gene/57708	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006166	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	MMGT1	http://www.ncbi.nlm.nih.gov/gene/93380	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006167	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	MOCS3	http://www.ncbi.nlm.nih.gov/gene/27304	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006168	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	MON2	http://www.ncbi.nlm.nih.gov/gene/23041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006169	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	MSN	http://www.ncbi.nlm.nih.gov/gene/4478	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006170	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	MTMR2	http://www.ncbi.nlm.nih.gov/gene/8898	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006171	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	MXD3	http://www.ncbi.nlm.nih.gov/gene/83463	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006172	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	N4BP2	http://www.ncbi.nlm.nih.gov/gene/55728	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006173	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	NAT12	http://www.ncbi.nlm.nih.gov/gene/122830 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006174	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	NBR1	http://www.ncbi.nlm.nih.gov/gene/4077	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006175	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	NDFIP1	http://www.ncbi.nlm.nih.gov/gene/80762	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006176	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	NEDD1	http://www.ncbi.nlm.nih.gov/gene/121441	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006177	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006178	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	NR2C2	http://www.ncbi.nlm.nih.gov/gene/7182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006179	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	NUDT21	http://www.ncbi.nlm.nih.gov/gene/11051	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006180	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ORMDL3	http://www.ncbi.nlm.nih.gov/gene/94103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006181	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PALM2-AKAP2	http://www.ncbi.nlm.nih.gov/gene/114299	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006182	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PAPOLG	http://www.ncbi.nlm.nih.gov/gene/64895	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006183	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PCGF5	http://www.ncbi.nlm.nih.gov/gene/84333	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006184	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PCNX	http://www.ncbi.nlm.nih.gov/gene/22990	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006185	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PEBP1	http://www.ncbi.nlm.nih.gov/gene/5037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006186	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PELO	http://www.ncbi.nlm.nih.gov/gene/53918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006187	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PFKM	http://www.ncbi.nlm.nih.gov/gene/5213	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006188	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PHF12	http://www.ncbi.nlm.nih.gov/gene/57649	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006189	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PHF17	http://www.ncbi.nlm.nih.gov/gene/79960	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006190	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PIGM	http://www.ncbi.nlm.nih.gov/gene/93183	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006191	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PIK3C2A	http://www.ncbi.nlm.nih.gov/gene/5286	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006192	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PIK3R3	http://www.ncbi.nlm.nih.gov/gene/8503	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006193	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PLAG1	http://www.ncbi.nlm.nih.gov/gene/5324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006194	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PLEKHF2	http://www.ncbi.nlm.nih.gov/gene/79666	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006195	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	POLQ	http://www.ncbi.nlm.nih.gov/gene/10721	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006196	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PPM1B	http://www.ncbi.nlm.nih.gov/gene/5495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006197	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PPP2CA	http://www.ncbi.nlm.nih.gov/gene/5515	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006198	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PRC1	http://www.ncbi.nlm.nih.gov/gene/9055	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006199	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PRPF40A	http://www.ncbi.nlm.nih.gov/gene/55660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006200	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PSMD12	http://www.ncbi.nlm.nih.gov/gene/5718	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006201	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	PUM2	http://www.ncbi.nlm.nih.gov/gene/23369	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006202	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RAB11FIP2	http://www.ncbi.nlm.nih.gov/gene/22841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006203	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RAB14	http://www.ncbi.nlm.nih.gov/gene/51552	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006204	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RAB3GAP2	http://www.ncbi.nlm.nih.gov/gene/25782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006205	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RAB7A	http://www.ncbi.nlm.nih.gov/gene/7879	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006206	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RABIF	http://www.ncbi.nlm.nih.gov/gene/5877	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006207	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RAP2B	http://www.ncbi.nlm.nih.gov/gene/5912	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006208	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RASSF8	http://www.ncbi.nlm.nih.gov/gene/11228	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006209	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RBM26	http://www.ncbi.nlm.nih.gov/gene/64062	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006210	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	REEP5	http://www.ncbi.nlm.nih.gov/gene/7905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006211	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RERE	http://www.ncbi.nlm.nih.gov/gene/473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006212	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RFK	http://www.ncbi.nlm.nih.gov/gene/55312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006213	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RFX7	http://www.ncbi.nlm.nih.gov/gene/64864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006214	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RIF1	http://www.ncbi.nlm.nih.gov/gene/55183	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006215	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RPL34	http://www.ncbi.nlm.nih.gov/gene/6164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006216	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RPRD1A	http://www.ncbi.nlm.nih.gov/gene/55197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006217	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RPRD2	http://www.ncbi.nlm.nih.gov/gene/23248	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006218	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RRM2B	http://www.ncbi.nlm.nih.gov/gene/50484	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006219	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RSBN1	http://www.ncbi.nlm.nih.gov/gene/54665	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006220	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	RSRC2	http://www.ncbi.nlm.nih.gov/gene/65117	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006221	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SCOC	http://www.ncbi.nlm.nih.gov/gene/60592	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006222	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SEC63	http://www.ncbi.nlm.nih.gov/gene/11231	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006223	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SENP5	http://www.ncbi.nlm.nih.gov/gene/205564	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006224	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SESTD1	http://www.ncbi.nlm.nih.gov/gene/91404	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006225	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SFRS1	http://www.ncbi.nlm.nih.gov/gene/6426	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006226	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SFRS18	http://www.ncbi.nlm.nih.gov/gene/25957	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006227	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SHCBP1	http://www.ncbi.nlm.nih.gov/gene/79801	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006228	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SHOC2	http://www.ncbi.nlm.nih.gov/gene/8036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006229	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SIRT5	http://www.ncbi.nlm.nih.gov/gene/23408	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006230	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SKI	http://www.ncbi.nlm.nih.gov/gene/6497	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006231	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SLC33A1	http://www.ncbi.nlm.nih.gov/gene/9197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006232	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SLC9A6	http://www.ncbi.nlm.nih.gov/gene/10479	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006233	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SMAD5	http://www.ncbi.nlm.nih.gov/gene/4090	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006234	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SMAP1	http://www.ncbi.nlm.nih.gov/gene/60682	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006235	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SMURF2	http://www.ncbi.nlm.nih.gov/gene/64750	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006236	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SNX9	http://www.ncbi.nlm.nih.gov/gene/51429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006237	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SOD2	http://www.ncbi.nlm.nih.gov/gene/6648	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006238	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	SP3	http://www.ncbi.nlm.nih.gov/gene/6670	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006239	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	STRBP	http://www.ncbi.nlm.nih.gov/gene/55342	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006240	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	STXBP4	http://www.ncbi.nlm.nih.gov/gene/252983	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006241	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TAF2	http://www.ncbi.nlm.nih.gov/gene/6873	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006242	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TAF4B	http://www.ncbi.nlm.nih.gov/gene/6875	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006243	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TANC2	http://www.ncbi.nlm.nih.gov/gene/26115	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006244	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TFB1M	http://www.ncbi.nlm.nih.gov/gene/51106	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006245	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	THAP2	http://www.ncbi.nlm.nih.gov/gene/83591	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006246	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	THOC2	http://www.ncbi.nlm.nih.gov/gene/57187	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006247	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TMEM170A	http://www.ncbi.nlm.nih.gov/gene/124491	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006248	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TMPO	http://www.ncbi.nlm.nih.gov/gene/7112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006249	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TNPO1	http://www.ncbi.nlm.nih.gov/gene/3842	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006250	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TNRC6B	http://www.ncbi.nlm.nih.gov/gene/23112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006251	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TPT1	http://www.ncbi.nlm.nih.gov/gene/389787	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006252	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TRAM1	http://www.ncbi.nlm.nih.gov/gene/23471	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006253	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TRAPPC6B	http://www.ncbi.nlm.nih.gov/gene/122553	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006254	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TRDMT1	http://www.ncbi.nlm.nih.gov/gene/1787	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006255	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TRIM23	http://www.ncbi.nlm.nih.gov/gene/373	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006256	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TSC1	http://www.ncbi.nlm.nih.gov/gene/7248	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006257	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TSHZ1	http://www.ncbi.nlm.nih.gov/gene/10194	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006258	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TTC35	http://www.ncbi.nlm.nih.gov/gene/9694	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006259	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	TWISTNB	http://www.ncbi.nlm.nih.gov/gene/221830	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006260	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	UBE2W	http://www.ncbi.nlm.nih.gov/gene/55284	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006261	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	UBR3	http://www.ncbi.nlm.nih.gov/gene/130507	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006262	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	UBTF	http://www.ncbi.nlm.nih.gov/gene/7343	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006263	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	VHL	http://www.ncbi.nlm.nih.gov/gene/7428	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006264	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	WASL	http://www.ncbi.nlm.nih.gov/gene/8976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006265	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	WDR48	http://www.ncbi.nlm.nih.gov/gene/57599	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006266	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	WHSC1	http://www.ncbi.nlm.nih.gov/gene/7468	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006267	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	XRN2	http://www.ncbi.nlm.nih.gov/gene/22803	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006268	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	XYLB	http://www.ncbi.nlm.nih.gov/gene/9942	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006269	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	YWHAG	http://www.ncbi.nlm.nih.gov/gene/7532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006270	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZBTB34	http://www.ncbi.nlm.nih.gov/gene/403341	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006271	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZBTB38	http://www.ncbi.nlm.nih.gov/gene/253461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006272	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZC3H13	http://www.ncbi.nlm.nih.gov/gene/23091	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006273	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZC3H6	http://www.ncbi.nlm.nih.gov/gene/376940	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006274	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZFP91	http://www.ncbi.nlm.nih.gov/gene/386607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006275	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZHX1	http://www.ncbi.nlm.nih.gov/gene/11244	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006276	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZKSCAN1	http://www.ncbi.nlm.nih.gov/gene/7586	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006277	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZMAT3	http://www.ncbi.nlm.nih.gov/gene/64393	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006278	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZNF12	http://www.ncbi.nlm.nih.gov/gene/7559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006279	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZNF295	http://www.ncbi.nlm.nih.gov/gene/49854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006280	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZNF37A	http://www.ncbi.nlm.nih.gov/gene/7587	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006281	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZNF518A	http://www.ncbi.nlm.nih.gov/gene/9849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006282	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZNF680	http://www.ncbi.nlm.nih.gov/gene/340252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006283	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZNF681	http://www.ncbi.nlm.nih.gov/gene/148213	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006284	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZNF791	http://www.ncbi.nlm.nih.gov/gene/163049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006285	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZNF805	http://www.ncbi.nlm.nih.gov/gene/390980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006286	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZNF91	http://www.ncbi.nlm.nih.gov/gene/7644	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006287	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-1	-	Host	mRNA	ZYG11A	http://www.ncbi.nlm.nih.gov/gene/440590	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006288	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ABCB8	http://www.ncbi.nlm.nih.gov/gene/11194	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006289	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ACTR2	http://www.ncbi.nlm.nih.gov/gene/10097	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006290	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ANKRD40	http://www.ncbi.nlm.nih.gov/gene/91369	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006291	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ANO6	http://www.ncbi.nlm.nih.gov/gene/196527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006292	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ARFGAP2	http://www.ncbi.nlm.nih.gov/gene/84364	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006293	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ATP6V0A2	http://www.ncbi.nlm.nih.gov/gene/23545	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006294	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ATXN7L1	http://www.ncbi.nlm.nih.gov/gene/222255	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006295	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	C10orf18	http://www.ncbi.nlm.nih.gov/gene/54906	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006296	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	C12orf23	http://www.ncbi.nlm.nih.gov/gene/90488	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006297	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	C15orf23	http://www.ncbi.nlm.nih.gov/gene/90417	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006298	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	C20orf96	http://www.ncbi.nlm.nih.gov/gene/140680	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006299	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	C3orf52	http://www.ncbi.nlm.nih.gov/gene/79669	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006300	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	C7orf44	http://www.ncbi.nlm.nih.gov/gene/55744	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006301	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	C9orf40	http://www.ncbi.nlm.nih.gov/gene/55071	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006302	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	CCDC102B	http://www.ncbi.nlm.nih.gov/gene/79839	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006303	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	CCND2	http://www.ncbi.nlm.nih.gov/gene/894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006304	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	CD200R1	http://www.ncbi.nlm.nih.gov/gene/131450	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006305	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	CDK6	http://www.ncbi.nlm.nih.gov/gene/1021	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006306	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	CENPQ	http://www.ncbi.nlm.nih.gov/gene/55166	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006307	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	CGRRF1	http://www.ncbi.nlm.nih.gov/gene/10668	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006308	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	CHFR	http://www.ncbi.nlm.nih.gov/gene/55743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006309	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	COPA	http://www.ncbi.nlm.nih.gov/gene/1314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006310	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	CRISPLD1	http://www.ncbi.nlm.nih.gov/gene/83690	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006311	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	CRLF3	http://www.ncbi.nlm.nih.gov/gene/51379	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006312	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	CSNK1G3	http://www.ncbi.nlm.nih.gov/gene/1456	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006313	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	CUL3	http://www.ncbi.nlm.nih.gov/gene/8452	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006314	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	CYB561D1	http://www.ncbi.nlm.nih.gov/gene/284613	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006315	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	DARS	http://www.ncbi.nlm.nih.gov/gene/1615	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006316	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	DCK	http://www.ncbi.nlm.nih.gov/gene/1633	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006317	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	DHX15	http://www.ncbi.nlm.nih.gov/gene/1665	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006318	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	DIP2B	http://www.ncbi.nlm.nih.gov/gene/57609	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006319	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	DONSON	http://www.ncbi.nlm.nih.gov/gene/29980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006320	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	E2F7	http://www.ncbi.nlm.nih.gov/gene/144455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006321	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	EGLN1	http://www.ncbi.nlm.nih.gov/gene/54583	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006322	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	EHD4	http://www.ncbi.nlm.nih.gov/gene/30844	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006323	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	EIF1AY	http://www.ncbi.nlm.nih.gov/gene/9086	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006324	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	EIF4A2	http://www.ncbi.nlm.nih.gov/gene/286512	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006325	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	EPHA5	http://www.ncbi.nlm.nih.gov/gene/2044	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006326	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ERO1L	http://www.ncbi.nlm.nih.gov/gene/30001	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006327	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	FADD	http://www.ncbi.nlm.nih.gov/gene/8772	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006328	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	FAM105B	http://www.ncbi.nlm.nih.gov/gene/90268	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006329	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	FAM169A	http://www.ncbi.nlm.nih.gov/gene/26049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006330	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	FAR1	http://www.ncbi.nlm.nih.gov/gene/84188	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006331	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	FEM1C	http://www.ncbi.nlm.nih.gov/gene/56929	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006332	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	FOXJ3	http://www.ncbi.nlm.nih.gov/gene/22887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006333	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	FUNDC2	http://www.ncbi.nlm.nih.gov/gene/65991	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006334	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	GLT8D3	http://www.ncbi.nlm.nih.gov/gene/283464 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006335	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	GOPC	http://www.ncbi.nlm.nih.gov/gene/57120	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006336	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	GPD2	http://www.ncbi.nlm.nih.gov/gene/2820	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006337	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	GPN1	http://www.ncbi.nlm.nih.gov/gene/11321	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006338	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	GSK3B	http://www.ncbi.nlm.nih.gov/gene/2932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006339	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	GTF2F1	http://www.ncbi.nlm.nih.gov/gene/2962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006340	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	GTF2H1	http://www.ncbi.nlm.nih.gov/gene/2965	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006341	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	HECTD1	http://www.ncbi.nlm.nih.gov/gene/25831	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006342	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	HIST1H4D	http://www.ncbi.nlm.nih.gov/gene/8367	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006343	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	HNRNPH1	http://www.ncbi.nlm.nih.gov/gene/3187	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006344	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	IFITM1	http://www.ncbi.nlm.nih.gov/gene/8519	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006345	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	IKZF1	http://www.ncbi.nlm.nih.gov/gene/10320	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006346	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	INO80D	http://www.ncbi.nlm.nih.gov/gene/54891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006347	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	IPO7	http://www.ncbi.nlm.nih.gov/gene/10527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006348	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ITGAV	http://www.ncbi.nlm.nih.gov/gene/3685	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006349	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	KATNAL1	http://www.ncbi.nlm.nih.gov/gene/84056	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006350	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	KIAA0146	http://www.ncbi.nlm.nih.gov/gene/23514	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006351	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	KIAA1211	http://www.ncbi.nlm.nih.gov/gene/57482	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006352	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	KIAA1244	http://www.ncbi.nlm.nih.gov/gene/57221	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006353	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	KLF3	http://www.ncbi.nlm.nih.gov/gene/51274	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006354	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	KLHDC10	http://www.ncbi.nlm.nih.gov/gene/23008	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006355	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	LPIN2	http://www.ncbi.nlm.nih.gov/gene/9663	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006356	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	LRRC57	http://www.ncbi.nlm.nih.gov/gene/255252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006357	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	LY75	http://www.ncbi.nlm.nih.gov/gene/4065	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006358	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	MAPK1	http://www.ncbi.nlm.nih.gov/gene/5594	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006359	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	MCFD2	http://www.ncbi.nlm.nih.gov/gene/90411	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006360	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	MED13	http://www.ncbi.nlm.nih.gov/gene/9969	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006361	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	MED13L	http://www.ncbi.nlm.nih.gov/gene/23389	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006362	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	MGRN1	http://www.ncbi.nlm.nih.gov/gene/23295	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006363	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	MIER1	http://www.ncbi.nlm.nih.gov/gene/57708	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006364	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	MLL5	http://www.ncbi.nlm.nih.gov/gene/55904	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006365	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	MMGT1	http://www.ncbi.nlm.nih.gov/gene/93380	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006366	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	MOBKL3	http://www.ncbi.nlm.nih.gov/gene/25843	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006367	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	MON2	http://www.ncbi.nlm.nih.gov/gene/23041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006368	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	MSN	http://www.ncbi.nlm.nih.gov/gene/4478	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006369	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	MTAP	http://www.ncbi.nlm.nih.gov/gene/4507	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006370	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	NBR1	http://www.ncbi.nlm.nih.gov/gene/4077	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006371	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	NR2C2	http://www.ncbi.nlm.nih.gov/gene/7182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006372	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	NUDT21	http://www.ncbi.nlm.nih.gov/gene/11051	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006373	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	NUP153	http://www.ncbi.nlm.nih.gov/gene/9972	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006374	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PAPOLG	http://www.ncbi.nlm.nih.gov/gene/64895	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006375	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PCNX	http://www.ncbi.nlm.nih.gov/gene/22990	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006376	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PCTP	http://www.ncbi.nlm.nih.gov/gene/58488	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006377	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PEBP1	http://www.ncbi.nlm.nih.gov/gene/5037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006378	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PELO	http://www.ncbi.nlm.nih.gov/gene/53918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006379	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PEX3	http://www.ncbi.nlm.nih.gov/gene/8504	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006380	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PHF17	http://www.ncbi.nlm.nih.gov/gene/79960	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006381	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PIGM	http://www.ncbi.nlm.nih.gov/gene/93183	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006382	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PIK3R3	http://www.ncbi.nlm.nih.gov/gene/8503	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006383	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PLCXD3	http://www.ncbi.nlm.nih.gov/gene/345557	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006384	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PLS3	http://www.ncbi.nlm.nih.gov/gene/5358	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006385	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PM20D2	http://www.ncbi.nlm.nih.gov/gene/135293	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006386	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	POLQ	http://www.ncbi.nlm.nih.gov/gene/10721	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006387	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PPAPDC2	http://www.ncbi.nlm.nih.gov/gene/403313	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006388	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PPM1B	http://www.ncbi.nlm.nih.gov/gene/5495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006389	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PSIP1	http://www.ncbi.nlm.nih.gov/gene/11168	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006390	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PSMD12	http://www.ncbi.nlm.nih.gov/gene/5718	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006391	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	PUM2	http://www.ncbi.nlm.nih.gov/gene/23369	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006392	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	RAB11FIP2	http://www.ncbi.nlm.nih.gov/gene/22841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006393	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	RAB7A	http://www.ncbi.nlm.nih.gov/gene/7879	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006394	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	RABIF	http://www.ncbi.nlm.nih.gov/gene/5877	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006395	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	RAD18	http://www.ncbi.nlm.nih.gov/gene/56852	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006396	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	RARB	http://www.ncbi.nlm.nih.gov/gene/5915	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006397	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	RARS2	http://www.ncbi.nlm.nih.gov/gene/57038	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006398	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	RASSF8	http://www.ncbi.nlm.nih.gov/gene/11228	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006399	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	RBM26	http://www.ncbi.nlm.nih.gov/gene/64062	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006400	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	RDH10	http://www.ncbi.nlm.nih.gov/gene/157506	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006401	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	RERE	http://www.ncbi.nlm.nih.gov/gene/473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006402	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	RFK	http://www.ncbi.nlm.nih.gov/gene/55312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006403	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	RIF1	http://www.ncbi.nlm.nih.gov/gene/55183	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006404	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	RNF170	http://www.ncbi.nlm.nih.gov/gene/81790	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006405	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	RPL34	http://www.ncbi.nlm.nih.gov/gene/6164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006406	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	RPRD2	http://www.ncbi.nlm.nih.gov/gene/23248	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006407	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	RRM2B	http://www.ncbi.nlm.nih.gov/gene/50484	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006408	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	SEC24A	http://www.ncbi.nlm.nih.gov/gene/10802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006409	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	SENP5	http://www.ncbi.nlm.nih.gov/gene/205564	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006410	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	SFRS1	http://www.ncbi.nlm.nih.gov/gene/6426	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006411	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	SFRS18	http://www.ncbi.nlm.nih.gov/gene/25957	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006412	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	SHOC2	http://www.ncbi.nlm.nih.gov/gene/8036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006413	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	SLC33A1	http://www.ncbi.nlm.nih.gov/gene/9197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006414	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	SLC40A1	http://www.ncbi.nlm.nih.gov/gene/30061	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006415	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	SLC9A6	http://www.ncbi.nlm.nih.gov/gene/10479	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006416	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	SMAP1	http://www.ncbi.nlm.nih.gov/gene/60682	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006417	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	SRPR	http://www.ncbi.nlm.nih.gov/gene/6734	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006418	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	STX12	http://www.ncbi.nlm.nih.gov/gene/23673	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006419	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	TAF2	http://www.ncbi.nlm.nih.gov/gene/6873	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006420	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	TAF4B	http://www.ncbi.nlm.nih.gov/gene/6875	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006421	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	TIAL1	http://www.ncbi.nlm.nih.gov/gene/7073	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006422	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	TMEM170A	http://www.ncbi.nlm.nih.gov/gene/124491	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006423	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	TMPO	http://www.ncbi.nlm.nih.gov/gene/7112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006424	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	TNRC6B	http://www.ncbi.nlm.nih.gov/gene/23112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006425	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	TRAM1	http://www.ncbi.nlm.nih.gov/gene/23471	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006426	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	TTC35	http://www.ncbi.nlm.nih.gov/gene/9694	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006427	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	TWISTNB	http://www.ncbi.nlm.nih.gov/gene/221830	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006428	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	UBTF	http://www.ncbi.nlm.nih.gov/gene/7343	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006429	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	VEPH1	http://www.ncbi.nlm.nih.gov/gene/79674	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006430	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	WASL	http://www.ncbi.nlm.nih.gov/gene/8976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006431	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	WDR48	http://www.ncbi.nlm.nih.gov/gene/57599	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006432	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	WHSC1	http://www.ncbi.nlm.nih.gov/gene/7468	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006433	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	XRN2	http://www.ncbi.nlm.nih.gov/gene/22803	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006434	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	YWHAG	http://www.ncbi.nlm.nih.gov/gene/7532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006435	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ZC3H13	http://www.ncbi.nlm.nih.gov/gene/23091	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006436	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ZHX1	http://www.ncbi.nlm.nih.gov/gene/11244	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006437	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ZKSCAN1	http://www.ncbi.nlm.nih.gov/gene/7586	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006438	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ZMAT3	http://www.ncbi.nlm.nih.gov/gene/64393	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006439	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ZNF12	http://www.ncbi.nlm.nih.gov/gene/7559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006440	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ZNF295	http://www.ncbi.nlm.nih.gov/gene/49854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006441	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ZNF680	http://www.ncbi.nlm.nih.gov/gene/340252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006442	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ZNF681	http://www.ncbi.nlm.nih.gov/gene/148213	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006443	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ZNF805	http://www.ncbi.nlm.nih.gov/gene/390980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006444	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ZNF91	http://www.ncbi.nlm.nih.gov/gene/7644	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006445	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2(miR-K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC-3	-	Host	mRNA	ZYG11A	http://www.ncbi.nlm.nih.gov/gene/440590	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006446	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-1	-	Host	mRNA	AASDHPPT	http://www.ncbi.nlm.nih.gov/gene/60496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006447	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-1	-	Host	mRNA	C1orf83	http://www.ncbi.nlm.nih.gov/gene/127428	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006448	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-1	-	Host	mRNA	ECT2	http://www.ncbi.nlm.nih.gov/gene/1894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006449	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-1	-	Host	mRNA	EPDR1	http://www.ncbi.nlm.nih.gov/gene/54749	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006450	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-1	-	Host	mRNA	HGF	http://www.ncbi.nlm.nih.gov/gene/3082	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006451	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-1	-	Host	mRNA	IPO5	http://www.ncbi.nlm.nih.gov/gene/3843	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006452	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-1	-	Host	mRNA	KLHL11	http://www.ncbi.nlm.nih.gov/gene/55175	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006453	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-1	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006454	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-1	-	Host	mRNA	PTAR1	http://www.ncbi.nlm.nih.gov/gene/375743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006455	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-1	-	Host	mRNA	RACGAP1P	http://www.ncbi.nlm.nih.gov/gene/29127	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006456	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-1	-	Host	mRNA	SNX3	http://www.ncbi.nlm.nih.gov/gene/8724	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006457	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-1	-	Host	mRNA	SSR2	http://www.ncbi.nlm.nih.gov/gene/6746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006458	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-1	-	Host	mRNA	TTC7B	http://www.ncbi.nlm.nih.gov/gene/145567	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006459	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-1	-	Host	mRNA	VPS4B	http://www.ncbi.nlm.nih.gov/gene/9525	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006460	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-1	-	Host	mRNA	ZNF295	http://www.ncbi.nlm.nih.gov/gene/49854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006461	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-3	-	Host	mRNA	CBLN3	http://www.ncbi.nlm.nih.gov/gene/643866	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006462	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-3	-	Host	mRNA	CLIC4	http://www.ncbi.nlm.nih.gov/gene/25932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006463	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-3	-	Host	mRNA	DDX21	http://www.ncbi.nlm.nih.gov/gene/9188	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006464	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-3	-	Host	mRNA	ECT2	http://www.ncbi.nlm.nih.gov/gene/1894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006465	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-3	-	Host	mRNA	FXN	http://www.ncbi.nlm.nih.gov/gene/2395	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006466	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-3	-	Host	mRNA	KBTBD2	http://www.ncbi.nlm.nih.gov/gene/25948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006467	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-3	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006468	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-3	-	Host	mRNA	PTAR1	http://www.ncbi.nlm.nih.gov/gene/375743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006469	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-3	-	Host	mRNA	RACGAP1P	http://www.ncbi.nlm.nih.gov/gene/29127	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006470	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-3	-	Host	mRNA	RARB	http://www.ncbi.nlm.nih.gov/gene/5915	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006471	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-3	-	Host	mRNA	S100A6	http://www.ncbi.nlm.nih.gov/gene/6277	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006472	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-3	-	Host	mRNA	SELPLG	http://www.ncbi.nlm.nih.gov/gene/6404	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006473	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-2-3p(miR-K2*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015215	BC-3	-	Host	mRNA	SNX16	http://www.ncbi.nlm.nih.gov/gene/64089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006474	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-3	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	Protein	LRRC8D	http://www.ncbi.nlm.nih.gov/gene/55144	Downregulation	Modeling of possible hybrids, derepression assays by using a 20-O-methyl RNA complementary.	20413099	LRRC8D Is Regulated by kshv-miR-K12-3 througha Single Target Site in Its 3'UTR.Modeling of possible hybrids between the LRRC8D 3'UTR and the KSHV-encoded miRNAs suggested a strong interaction of the 3'UTR with kshv-miR-K12-3.
VHID00006475	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	Upregulation	Host	Protein	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	Downregulation	Reporter assay, miRNA and shRNA expression.	20847741	In this study, we show that KSHV miR-K3 can regulate viral latency by targeting nuclear factor I/B (NFIB). Both viral lytic replication and gene expression were inhibited by overexpressing miR-K3 or depleting NFIB. These findings suggest a role for KSHV miRNAs in regulating the viral life cycle.
VHID00006476	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-3-3p(miR-K12-3-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002194	-	-	Host	Protein	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00006477	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-3-3p(miR-K12-3-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002194	293 Cells	-	Host	Protein	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	Luciferase de-repression assay.	17500590	We performed luciferase de-repression assays by co-transfection of the THBS1 3'UTR reporter and 2'OMe RNAs specific to individual KSHV miRNAs. Our results demonstrate that THBS1 is targeted by multiple KSHV miRNAs; in particular, miR-K12-1, miR-K12-3-3p, miR-K12-6-3p, and miR-K12-11 lead to strong de-repression of the reporter.
VHID00006478	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-3-3p(miR-K3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002194	BC-1	-	Host	mRNA	B4GALT1	http://www.ncbi.nlm.nih.gov/gene/2683	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006479	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-3-3p(miR-K3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002194	BC-1	-	Host	mRNA	PRKAA1	http://www.ncbi.nlm.nih.gov/gene/5562	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006480	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-3-3p(miR-K3-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002194	-	-	Host	Protein	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00006481	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	-	-	Host	Protein	GEMIN8	http://www.ncbi.nlm.nih.gov/gene/54960	Downregulation	3'UTR dual-luciferase assay.	20413099	We identified a high confidence interaction site for kshv-miR-K12-4-3p in the coding sequence of GEMIN8 and for kshv-miR-K12-3 in the coding sequence of NHP2L1.
VHID00006482	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC3	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00006483	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC3	-	Host	mRNA	GEMIN8	http://www.ncbi.nlm.nih.gov/gene/54960	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00006484	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC3	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00006485	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BCBL1	-	Host	mRNA	GEMIN8	http://www.ncbi.nlm.nih.gov/gene/54960	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00006486	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BCBL1	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00006487	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K12-4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	-	-	Host	Protein	GEMIN8	http://www.ncbi.nlm.nih.gov/gene/54960	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00006488	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K12-4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	-	-	Host	Protein	MCC	http://www.ncbi.nlm.nih.gov/gene/4163	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00006489	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K12-4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	-	-	Host	Protein	NHP2L1	http://www.ncbi.nlm.nih.gov/gene/4809	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00006490	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K12-4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	-	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00006491	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K12-4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	DG-75-K10/12 cells	-	Host	Protein	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	Downregulation	Northern blot analysis, Real-time PCR, Luciferase assays, Small RNA cloning and sequencing, Western blot analysis.	22174674	We found that three KSHV miRNAs, miR-K12-1, 3 and 4-3p, were responsible for the targeting of Casp3.Potential cellular targets that were significantly down-regulated upon KSHV miRNAs expression were identified by microarray profiling.
VHID00006492	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K12-4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	HEK293 cells	-	Host	Protein	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	Luciferase assays,quantitative PCR and western blotting.	22174674	we validated by luciferase reporter assays, quantitative PCR and western blotting caspase 3 (Casp3), a critical factor for the control of apoptosis. Using site-directed mutagenesis, we found that three KSHV miRNAs, miR-K12-1, 3 and 4-3p, were responsible for the targeting of Casp3. .
VHID00006493	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K12-4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	Lymphocytes	-	Host	Protein	GEMIN8	http://www.ncbi.nlm.nih.gov/gene/54960	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	miR-K12-4-3p suppression of GEMIN8,miR-K12-1, -6, and -11 decrease of MAF(musculoaponeurotic fibrosarcoma oncogene homolog)..
VHID00006494	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ABL2	http://www.ncbi.nlm.nih.gov/gene/27	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006495	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ACSL1	http://www.ncbi.nlm.nih.gov/gene/2180	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006496	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ADIPOR2	http://www.ncbi.nlm.nih.gov/gene/79602	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006497	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	AMMECR1L	http://www.ncbi.nlm.nih.gov/gene/83607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006498	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ANGEL2	http://www.ncbi.nlm.nih.gov/gene/90806	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006499	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	AP1S3	http://www.ncbi.nlm.nih.gov/gene/130340	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006500	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	AP3M1	http://www.ncbi.nlm.nih.gov/gene/26985	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006501	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	APTX	http://www.ncbi.nlm.nih.gov/gene/54840	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006502	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ARFGEF1	http://www.ncbi.nlm.nih.gov/gene/10565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006503	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ARFIP1	http://www.ncbi.nlm.nih.gov/gene/27236	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006504	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ARIH1	http://www.ncbi.nlm.nih.gov/gene/25820	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006505	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ARL5A	http://www.ncbi.nlm.nih.gov/gene/26225	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006506	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ARL5B	http://www.ncbi.nlm.nih.gov/gene/221079	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006507	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ARL6IP1	http://www.ncbi.nlm.nih.gov/gene/23204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006508	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ARNT	http://www.ncbi.nlm.nih.gov/gene/405	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006509	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ATE1	http://www.ncbi.nlm.nih.gov/gene/11101	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006510	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ATP6V0E1	http://www.ncbi.nlm.nih.gov/gene/8992	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006511	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ATP6V1A	http://www.ncbi.nlm.nih.gov/gene/523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006512	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ATXN1	http://www.ncbi.nlm.nih.gov/gene/6310	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006513	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	B4GALT6	http://www.ncbi.nlm.nih.gov/gene/9331	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006514	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	BBX	http://www.ncbi.nlm.nih.gov/gene/56987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006515	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	BICD2	http://www.ncbi.nlm.nih.gov/gene/23299	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006516	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	BTAF1	http://www.ncbi.nlm.nih.gov/gene/9044	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006517	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	BTBD3	http://www.ncbi.nlm.nih.gov/gene/22903	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006518	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	C12orf5	http://www.ncbi.nlm.nih.gov/gene/57103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006519	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	C14orf2	http://www.ncbi.nlm.nih.gov/gene/9556	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006520	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	C16orf72	http://www.ncbi.nlm.nih.gov/gene/29035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006521	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	C20orf112	http://www.ncbi.nlm.nih.gov/gene/140688	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006522	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	C4orf46	http://www.ncbi.nlm.nih.gov/gene/201725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006523	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	C5orf24	http://www.ncbi.nlm.nih.gov/gene/134553	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006524	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	C9orf126	http://www.ncbi.nlm.nih.gov/gene/286205 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006525	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	C9orf41	http://www.ncbi.nlm.nih.gov/gene/138199	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006526	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	C9orf91	http://www.ncbi.nlm.nih.gov/gene/203197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006527	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CAMKK2	http://www.ncbi.nlm.nih.gov/gene/10645	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006528	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CAMSAP1	http://www.ncbi.nlm.nih.gov/gene/157922	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006529	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CAMSAP1L1	http://www.ncbi.nlm.nih.gov/gene/23271	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006530	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CARD8	http://www.ncbi.nlm.nih.gov/gene/22900	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006531	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006532	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CCDC50	http://www.ncbi.nlm.nih.gov/gene/152137	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006533	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CCNG1	http://www.ncbi.nlm.nih.gov/gene/900	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006534	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006535	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CDC2L5	http://www.ncbi.nlm.nih.gov/gene/8621 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006536	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CDC42SE1	http://www.ncbi.nlm.nih.gov/gene/56882	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006537	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CHIC1	http://www.ncbi.nlm.nih.gov/gene/53344	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006538	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CHIC2	http://www.ncbi.nlm.nih.gov/gene/26511	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006539	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CLP1	http://www.ncbi.nlm.nih.gov/gene/10978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006540	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	COBLL1	http://www.ncbi.nlm.nih.gov/gene/22837	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006541	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CPD	http://www.ncbi.nlm.nih.gov/gene/1362	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006542	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CPEB3	http://www.ncbi.nlm.nih.gov/gene/22849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006543	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CPEB4	http://www.ncbi.nlm.nih.gov/gene/80315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006544	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	CUL3	http://www.ncbi.nlm.nih.gov/gene/8452	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006545	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	DDI2	http://www.ncbi.nlm.nih.gov/gene/84301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006546	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	DDX21	http://www.ncbi.nlm.nih.gov/gene/9188	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006547	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	DHX40	http://www.ncbi.nlm.nih.gov/gene/100134387	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006548	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	DLG1	http://www.ncbi.nlm.nih.gov/gene/1739	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006549	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	DNAJB4	http://www.ncbi.nlm.nih.gov/gene/11080	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006550	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	DNAJB9	http://www.ncbi.nlm.nih.gov/gene/4189	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006551	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	DNM2	http://www.ncbi.nlm.nih.gov/gene/1785	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006552	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	EPDR1	http://www.ncbi.nlm.nih.gov/gene/54749	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006553	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	EPRS	http://www.ncbi.nlm.nih.gov/gene/2058	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006554	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	EXO1	http://www.ncbi.nlm.nih.gov/gene/9156	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006555	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	FAM105B	http://www.ncbi.nlm.nih.gov/gene/90268	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006556	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	FAM161A	http://www.ncbi.nlm.nih.gov/gene/84140	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006557	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	FAM177A1	http://www.ncbi.nlm.nih.gov/gene/283635	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006558	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	FAM179B	http://www.ncbi.nlm.nih.gov/gene/23116	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006559	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	FAM82A2	http://www.ncbi.nlm.nih.gov/gene/55177	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006560	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	FANCF	http://www.ncbi.nlm.nih.gov/gene/2188	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006561	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	FEM1B	http://www.ncbi.nlm.nih.gov/gene/10116	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006562	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	FEM1C	http://www.ncbi.nlm.nih.gov/gene/56929	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006563	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	FIGNL1	http://www.ncbi.nlm.nih.gov/gene/63979	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006564	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	FOXO1	http://www.ncbi.nlm.nih.gov/gene/2308	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006565	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	FOXO3	http://www.ncbi.nlm.nih.gov/gene/2310	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006566	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	FOXP2	http://www.ncbi.nlm.nih.gov/gene/93986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006567	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	G3BP2	http://www.ncbi.nlm.nih.gov/gene/9908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006568	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	GCNT2	http://www.ncbi.nlm.nih.gov/gene/2651	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006569	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	GFPT1	http://www.ncbi.nlm.nih.gov/gene/2673	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006570	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	GIT2	http://www.ncbi.nlm.nih.gov/gene/9815	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006571	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	GMPPB	http://www.ncbi.nlm.nih.gov/gene/29925	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006572	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	GNA13	http://www.ncbi.nlm.nih.gov/gene/10672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006573	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	GNS	http://www.ncbi.nlm.nih.gov/gene/2799	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006574	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	GOLGA5	http://www.ncbi.nlm.nih.gov/gene/9950	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006575	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	GRB2	http://www.ncbi.nlm.nih.gov/gene/2885	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006576	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	GRPEL2	http://www.ncbi.nlm.nih.gov/gene/134266	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006577	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	GSK3B	http://www.ncbi.nlm.nih.gov/gene/2932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006578	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	HACE1	http://www.ncbi.nlm.nih.gov/gene/57531	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006579	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	HACL1	http://www.ncbi.nlm.nih.gov/gene/26061	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006580	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	HAUS2	http://www.ncbi.nlm.nih.gov/gene/55142	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006581	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	HELLS	http://www.ncbi.nlm.nih.gov/gene/3070	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006582	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	HELZ	http://www.ncbi.nlm.nih.gov/gene/9931	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006583	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	HIATL1	http://www.ncbi.nlm.nih.gov/gene/84641	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006584	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	HMGCR	http://www.ncbi.nlm.nih.gov/gene/3156	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006585	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	HNRNPA3	http://www.ncbi.nlm.nih.gov/gene/220988	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006586	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	HSPA13	http://www.ncbi.nlm.nih.gov/gene/6782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006587	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	IKZF5	http://www.ncbi.nlm.nih.gov/gene/64376	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006588	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	IL1RAP	http://www.ncbi.nlm.nih.gov/gene/3556	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006589	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	IMPA1	http://www.ncbi.nlm.nih.gov/gene/3612	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006590	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	IPO9	http://www.ncbi.nlm.nih.gov/gene/55705	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006591	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	IPPK	http://www.ncbi.nlm.nih.gov/gene/64768	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006592	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	JHDM1D	http://www.ncbi.nlm.nih.gov/gene/80853	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006593	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	KBTBD2	http://www.ncbi.nlm.nih.gov/gene/25948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006594	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	KDM5C	http://www.ncbi.nlm.nih.gov/gene/8242	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006595	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	KIAA1143	http://www.ncbi.nlm.nih.gov/gene/57456	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006596	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	KIAA1211	http://www.ncbi.nlm.nih.gov/gene/57482	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006597	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	KIAA1919	http://www.ncbi.nlm.nih.gov/gene/91749	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006598	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	KIF14	http://www.ncbi.nlm.nih.gov/gene/9928	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006599	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	KRIT1	http://www.ncbi.nlm.nih.gov/gene/889	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006600	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	LANCL1	http://www.ncbi.nlm.nih.gov/gene/10314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006601	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	LCOR	http://www.ncbi.nlm.nih.gov/gene/84458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006602	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	LIN9	http://www.ncbi.nlm.nih.gov/gene/286826	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006603	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	LONP2	http://www.ncbi.nlm.nih.gov/gene/83752	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006604	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	LPGAT1	http://www.ncbi.nlm.nih.gov/gene/9926	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006605	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	LRRC58	http://www.ncbi.nlm.nih.gov/gene/116064	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006606	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	LYRM7	http://www.ncbi.nlm.nih.gov/gene/90624	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006607	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MACROD2	http://www.ncbi.nlm.nih.gov/gene/140733	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006608	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MAP3K2	http://www.ncbi.nlm.nih.gov/gene/10746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006609	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MAPK6	http://www.ncbi.nlm.nih.gov/gene/5597	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006610	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MBNL2	http://www.ncbi.nlm.nih.gov/gene/10150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006611	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MBNL3	http://www.ncbi.nlm.nih.gov/gene/55796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006612	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MBTD1	http://www.ncbi.nlm.nih.gov/gene/54799	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006613	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MCC	http://www.ncbi.nlm.nih.gov/gene/4163	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006614	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MDN1	http://www.ncbi.nlm.nih.gov/gene/23195	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006615	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MEF2A	http://www.ncbi.nlm.nih.gov/gene/4205	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006616	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MEX3B	http://www.ncbi.nlm.nih.gov/gene/84206	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006617	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MEX3C	http://www.ncbi.nlm.nih.gov/gene/51320	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006618	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MITF	http://www.ncbi.nlm.nih.gov/gene/4286	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006619	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MLL5	http://www.ncbi.nlm.nih.gov/gene/55904	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006620	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MORC3	http://www.ncbi.nlm.nih.gov/gene/23515	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006621	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MRPL35	http://www.ncbi.nlm.nih.gov/gene/51318	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006622	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MRPS35	http://www.ncbi.nlm.nih.gov/gene/60488	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006623	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MSL2	http://www.ncbi.nlm.nih.gov/gene/55167	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006624	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MTHFD2	http://www.ncbi.nlm.nih.gov/gene/10797	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006625	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MTHFR	http://www.ncbi.nlm.nih.gov/gene/4524	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006626	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MTMR9	http://www.ncbi.nlm.nih.gov/gene/66036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006627	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MTPN	http://www.ncbi.nlm.nih.gov/gene/767558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006628	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	MXD4	http://www.ncbi.nlm.nih.gov/gene/10608	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006629	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	NAB1	http://www.ncbi.nlm.nih.gov/gene/4664	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006630	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	NCAPG2	http://www.ncbi.nlm.nih.gov/gene/54892	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006631	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	NDUFA8	http://www.ncbi.nlm.nih.gov/gene/4702	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006632	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	NDUFC1	http://www.ncbi.nlm.nih.gov/gene/4717	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006633	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	NEK7	http://www.ncbi.nlm.nih.gov/gene/140609	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006634	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	NET1	http://www.ncbi.nlm.nih.gov/gene/10276	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006635	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	NFAT5	http://www.ncbi.nlm.nih.gov/gene/10725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006636	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006637	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	NISCH	http://www.ncbi.nlm.nih.gov/gene/11188	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006638	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	NPTN	http://www.ncbi.nlm.nih.gov/gene/27020	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006639	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	NR3C1	http://www.ncbi.nlm.nih.gov/gene/2908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006640	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	NUCKS1	http://www.ncbi.nlm.nih.gov/gene/64710	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006641	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	NUP50	http://www.ncbi.nlm.nih.gov/gene/10762	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006642	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	NUPL1	http://www.ncbi.nlm.nih.gov/gene/9818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006643	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	OAS2	http://www.ncbi.nlm.nih.gov/gene/4939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006644	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	OPTN	http://www.ncbi.nlm.nih.gov/gene/10133	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006645	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ORC2L	http://www.ncbi.nlm.nih.gov/gene/4999	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006646	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ORMDL3	http://www.ncbi.nlm.nih.gov/gene/94103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006647	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	OSTM1	http://www.ncbi.nlm.nih.gov/gene/28962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006648	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	OTUD6B	http://www.ncbi.nlm.nih.gov/gene/51633	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006649	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	OXR1	http://www.ncbi.nlm.nih.gov/gene/55074	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006650	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PALM2-AKAP2	http://www.ncbi.nlm.nih.gov/gene/114299	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006651	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PAN3	http://www.ncbi.nlm.nih.gov/gene/255967	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006652	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PCDHB2	http://www.ncbi.nlm.nih.gov/gene/56133	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006653	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PCMTD2	http://www.ncbi.nlm.nih.gov/gene/55251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006654	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PDCD4	http://www.ncbi.nlm.nih.gov/gene/27250	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006655	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PFTK1	http://www.ncbi.nlm.nih.gov/gene/5218 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006656	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PHACTR4	http://www.ncbi.nlm.nih.gov/gene/65979	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006657	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PHLPP2	http://www.ncbi.nlm.nih.gov/gene/23035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006658	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PHTF2	http://www.ncbi.nlm.nih.gov/gene/57157	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006659	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PIAS4	http://www.ncbi.nlm.nih.gov/gene/51588	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006660	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PIGO	http://www.ncbi.nlm.nih.gov/gene/84720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006661	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PIK3C2A	http://www.ncbi.nlm.nih.gov/gene/5286	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006662	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PIP5K2B	http://www.ncbi.nlm.nih.gov/gene/ 8396	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006663	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PLA2G6	http://www.ncbi.nlm.nih.gov/gene/8398	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006664	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PLEKHA2	http://www.ncbi.nlm.nih.gov/gene/59339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006665	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	POGK	http://www.ncbi.nlm.nih.gov/gene/57645	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006666	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	POLR3F	http://www.ncbi.nlm.nih.gov/gene/10621	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006667	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006668	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PPHLN1	http://www.ncbi.nlm.nih.gov/gene/51535	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006669	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PPM1B	http://www.ncbi.nlm.nih.gov/gene/5495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006670	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PPP4R2	http://www.ncbi.nlm.nih.gov/gene/151987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006671	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PRDM1	http://www.ncbi.nlm.nih.gov/gene/639	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006672	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PREPL	http://www.ncbi.nlm.nih.gov/gene/9581	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006673	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PRIM2	http://www.ncbi.nlm.nih.gov/gene/5558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006674	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PRPF38A	http://www.ncbi.nlm.nih.gov/gene/84950	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006675	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PTPLAD1	http://www.ncbi.nlm.nih.gov/gene/51495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006676	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	PURB	http://www.ncbi.nlm.nih.gov/gene/5814	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006677	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	QRICH1	http://www.ncbi.nlm.nih.gov/gene/54870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006678	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	RAB11A	http://www.ncbi.nlm.nih.gov/gene/8766	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006679	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	RAB11FIP2	http://www.ncbi.nlm.nih.gov/gene/22841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006680	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	RBM43	http://www.ncbi.nlm.nih.gov/gene/375287	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006681	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	RBM8A	http://www.ncbi.nlm.nih.gov/gene/9939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006682	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	RBPSUH	http://www.ncbi.nlm.nih.gov/gene/3516	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006683	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	RCOR1	http://www.ncbi.nlm.nih.gov/gene/23186	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006684	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	RCOR3	http://www.ncbi.nlm.nih.gov/gene/55758	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006685	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	RHOU	http://www.ncbi.nlm.nih.gov/gene/58480	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006686	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ROCK2	http://www.ncbi.nlm.nih.gov/gene/9475	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006687	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006688	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	RPS6KA3	http://www.ncbi.nlm.nih.gov/gene/6197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006689	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	RRAGC	http://www.ncbi.nlm.nih.gov/gene/64121	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006690	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	RRM2B	http://www.ncbi.nlm.nih.gov/gene/50484	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006691	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	RYBP	http://www.ncbi.nlm.nih.gov/gene/23429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006692	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	S100PBP	http://www.ncbi.nlm.nih.gov/gene/64766	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006693	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SACM1L	http://www.ncbi.nlm.nih.gov/gene/22908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006694	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SCD5	http://www.ncbi.nlm.nih.gov/gene/79966	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006695	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SDHD	http://www.ncbi.nlm.nih.gov/gene/6392	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006696	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SETD6	http://www.ncbi.nlm.nih.gov/gene/79918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006697	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SETD8	http://www.ncbi.nlm.nih.gov/gene/387893	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006698	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SFRS18	http://www.ncbi.nlm.nih.gov/gene/25957	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006699	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SH3BGRL2	http://www.ncbi.nlm.nih.gov/gene/83699	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006700	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SHCBP1	http://www.ncbi.nlm.nih.gov/gene/79801	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006701	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SIKE1	http://www.ncbi.nlm.nih.gov/gene/80143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006702	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SLBP	http://www.ncbi.nlm.nih.gov/gene/7884	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006703	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SLC11A2	http://www.ncbi.nlm.nih.gov/gene/4891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006704	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SLC16A1	http://www.ncbi.nlm.nih.gov/gene/6566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006705	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SLC9A1	http://www.ncbi.nlm.nih.gov/gene/6548	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006706	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SMAD2	http://www.ncbi.nlm.nih.gov/gene/4087	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006707	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SMAD4	http://www.ncbi.nlm.nih.gov/gene/4089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006708	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SMAD5	http://www.ncbi.nlm.nih.gov/gene/4090	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006709	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SMC1A	http://www.ncbi.nlm.nih.gov/gene/8243	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006710	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SMG1	http://www.ncbi.nlm.nih.gov/gene/23049	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006711	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SMURF2	http://www.ncbi.nlm.nih.gov/gene/64750	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006712	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SNTB2	http://www.ncbi.nlm.nih.gov/gene/6645	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006713	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SOS1	http://www.ncbi.nlm.nih.gov/gene/6654	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006714	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SPOPL	http://www.ncbi.nlm.nih.gov/gene/339745	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006715	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SPTY2D1	http://www.ncbi.nlm.nih.gov/gene/144108	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006716	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SR140	http://www.ncbi.nlm.nih.gov/gene/23350	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006717	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SS18L1	http://www.ncbi.nlm.nih.gov/gene/26039	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006718	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	STAM2	http://www.ncbi.nlm.nih.gov/gene/10254	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006719	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	STRN	http://www.ncbi.nlm.nih.gov/gene/6801	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006720	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	STYX	http://www.ncbi.nlm.nih.gov/gene/6815	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006721	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	SYNCRIP	http://www.ncbi.nlm.nih.gov/gene/10492	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006722	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	TAF4B	http://www.ncbi.nlm.nih.gov/gene/6875	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006723	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	TAF8	http://www.ncbi.nlm.nih.gov/gene/129685	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006724	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	TFRC	http://www.ncbi.nlm.nih.gov/gene/7037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006725	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	TMEM188	http://www.ncbi.nlm.nih.gov/gene/100130176	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006726	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	TMEM20	http://www.ncbi.nlm.nih.gov/gene/159371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006727	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	TMEM209	http://www.ncbi.nlm.nih.gov/gene/84928	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006728	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	TPD52	http://www.ncbi.nlm.nih.gov/gene/7163	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006729	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	TRIM25	http://www.ncbi.nlm.nih.gov/gene/7706	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006730	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	TRIM26	http://www.ncbi.nlm.nih.gov/gene/7726	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006731	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	TRIM33	http://www.ncbi.nlm.nih.gov/gene/51592	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006732	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	TRIM65	http://www.ncbi.nlm.nih.gov/gene/201292	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006733	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	TSG101	http://www.ncbi.nlm.nih.gov/gene/7251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006734	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	TTPAL	http://www.ncbi.nlm.nih.gov/gene/79183	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006735	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	TXNDC16	http://www.ncbi.nlm.nih.gov/gene/57544	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006736	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	UBE2D3	http://www.ncbi.nlm.nih.gov/gene/100037280	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006737	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	UBN2	http://www.ncbi.nlm.nih.gov/gene/254048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006738	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	UBQLN1	http://www.ncbi.nlm.nih.gov/gene/29979	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006739	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	UBXN2A	http://www.ncbi.nlm.nih.gov/gene/165324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006740	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	USP22	http://www.ncbi.nlm.nih.gov/gene/23326	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006741	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	UTP14C	http://www.ncbi.nlm.nih.gov/gene/9724	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006742	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	VEZF1	http://www.ncbi.nlm.nih.gov/gene/7716	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006743	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	VEZT	http://www.ncbi.nlm.nih.gov/gene/55591	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006744	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	VPS4B	http://www.ncbi.nlm.nih.gov/gene/9525	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006745	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	WDR75	http://www.ncbi.nlm.nih.gov/gene/84128	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006746	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	WWTR1	http://www.ncbi.nlm.nih.gov/gene/25937	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006747	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	XPOT	http://www.ncbi.nlm.nih.gov/gene/11260	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006748	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	XRCC4	http://www.ncbi.nlm.nih.gov/gene/7518	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006749	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	XRN2	http://www.ncbi.nlm.nih.gov/gene/22803	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006750	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	YTHDC1	http://www.ncbi.nlm.nih.gov/gene/91746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006751	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	YWHAB	http://www.ncbi.nlm.nih.gov/gene/7529	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006752	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZBTB33	http://www.ncbi.nlm.nih.gov/gene/10009	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006753	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZBTB38	http://www.ncbi.nlm.nih.gov/gene/253461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006754	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZC3H11A	http://www.ncbi.nlm.nih.gov/gene/9877	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006755	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZFP36	http://www.ncbi.nlm.nih.gov/gene/7538	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006756	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZFP90	http://www.ncbi.nlm.nih.gov/gene/146198	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006757	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZFYVE20	http://www.ncbi.nlm.nih.gov/gene/64145	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006758	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZNF12	http://www.ncbi.nlm.nih.gov/gene/7559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006759	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZNF28	http://www.ncbi.nlm.nih.gov/gene/7576	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006760	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZNF302	http://www.ncbi.nlm.nih.gov/gene/55900	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006761	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZNF320	http://www.ncbi.nlm.nih.gov/gene/162967	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006762	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZNF326	http://www.ncbi.nlm.nih.gov/gene/284695	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006763	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZNF451	http://www.ncbi.nlm.nih.gov/gene/26036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006764	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZNF460	http://www.ncbi.nlm.nih.gov/gene/10794	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006765	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZNF512B	http://www.ncbi.nlm.nih.gov/gene/57473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006766	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZNF655	http://www.ncbi.nlm.nih.gov/gene/79027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006767	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZNF714	http://www.ncbi.nlm.nih.gov/gene/148206	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006768	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZNF738	http://www.ncbi.nlm.nih.gov/gene/148203	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006769	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-1	-	Host	mRNA	ZNF772	http://www.ncbi.nlm.nih.gov/gene/400720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006770	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ABHD3	http://www.ncbi.nlm.nih.gov/gene/171586	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006771	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ABL2	http://www.ncbi.nlm.nih.gov/gene/27	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006772	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ADIPOR2	http://www.ncbi.nlm.nih.gov/gene/79602	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006773	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ANKMY2	http://www.ncbi.nlm.nih.gov/gene/57037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006774	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	APP	http://www.ncbi.nlm.nih.gov/gene/351	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006775	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	APTX	http://www.ncbi.nlm.nih.gov/gene/54840	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006776	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ARFGEF1	http://www.ncbi.nlm.nih.gov/gene/10565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006777	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ARL5B	http://www.ncbi.nlm.nih.gov/gene/221079	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006778	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ARL6IP1	http://www.ncbi.nlm.nih.gov/gene/23204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006779	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ASZ1	http://www.ncbi.nlm.nih.gov/gene/136991	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006780	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ATE1	http://www.ncbi.nlm.nih.gov/gene/11101	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006781	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ATP6V0E1	http://www.ncbi.nlm.nih.gov/gene/8992	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006782	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ATP6V1A	http://www.ncbi.nlm.nih.gov/gene/523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006783	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	BBX	http://www.ncbi.nlm.nih.gov/gene/56987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006784	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	BCL2L2	http://www.ncbi.nlm.nih.gov/gene/599	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006785	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	BTBD3	http://www.ncbi.nlm.nih.gov/gene/22903	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006786	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	C14orf2	http://www.ncbi.nlm.nih.gov/gene/9556	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006787	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	C16orf80	http://www.ncbi.nlm.nih.gov/gene/29105	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006788	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	C20orf112	http://www.ncbi.nlm.nih.gov/gene/140688	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006789	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	C5orf24	http://www.ncbi.nlm.nih.gov/gene/134553	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006790	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	C7orf42	http://www.ncbi.nlm.nih.gov/gene/55069	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006791	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	C9orf126	http://www.ncbi.nlm.nih.gov/gene/286205 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006792	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CAMKK2	http://www.ncbi.nlm.nih.gov/gene/10645	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006793	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CARD8	http://www.ncbi.nlm.nih.gov/gene/22900	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006794	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CCDC50	http://www.ncbi.nlm.nih.gov/gene/152137	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006795	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CCNG1	http://www.ncbi.nlm.nih.gov/gene/900	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006796	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006797	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CD59	http://www.ncbi.nlm.nih.gov/gene/966	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006798	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CDC2L5	http://www.ncbi.nlm.nih.gov/gene/8621 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006799	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CDC42SE1	http://www.ncbi.nlm.nih.gov/gene/56882	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006800	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CDCA8	http://www.ncbi.nlm.nih.gov/gene/55143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006801	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CDR2	http://www.ncbi.nlm.nih.gov/gene/1039	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006802	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CETN3	http://www.ncbi.nlm.nih.gov/gene/1070	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006803	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CFL2	http://www.ncbi.nlm.nih.gov/gene/1073	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006804	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CITED2	http://www.ncbi.nlm.nih.gov/gene/10370	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006805	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CLP1	http://www.ncbi.nlm.nih.gov/gene/10978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006806	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	COBLL1	http://www.ncbi.nlm.nih.gov/gene/22837	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006807	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	COCH	http://www.ncbi.nlm.nih.gov/gene/1690	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006808	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CPD	http://www.ncbi.nlm.nih.gov/gene/1362	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006809	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CPEB3	http://www.ncbi.nlm.nih.gov/gene/22849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006810	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	CXorf39	http://www.ncbi.nlm.nih.gov/gene/139231 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006811	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	DDI2	http://www.ncbi.nlm.nih.gov/gene/84301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006812	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	DDX21	http://www.ncbi.nlm.nih.gov/gene/9188	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006813	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	DHX40	http://www.ncbi.nlm.nih.gov/gene/100134387	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006814	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	DIDO1	http://www.ncbi.nlm.nih.gov/gene/11083	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006815	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	DLG1	http://www.ncbi.nlm.nih.gov/gene/1739	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006816	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	DNAJB4	http://www.ncbi.nlm.nih.gov/gene/11080	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006817	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	DNAJB9	http://www.ncbi.nlm.nih.gov/gene/4189	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006818	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	DNM2	http://www.ncbi.nlm.nih.gov/gene/1785	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006819	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	DYNC1LI1	http://www.ncbi.nlm.nih.gov/gene/51143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006820	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	E2F7	http://www.ncbi.nlm.nih.gov/gene/144455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006821	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	EAF1	http://www.ncbi.nlm.nih.gov/gene/85403	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006822	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	EPDR1	http://www.ncbi.nlm.nih.gov/gene/54749	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006823	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ESD	http://www.ncbi.nlm.nih.gov/gene/2098	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006824	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	EXO1	http://www.ncbi.nlm.nih.gov/gene/9156	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006825	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	EXOC5	http://www.ncbi.nlm.nih.gov/gene/10640	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006826	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	EZH2	http://www.ncbi.nlm.nih.gov/gene/2146	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006827	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	FAM105B	http://www.ncbi.nlm.nih.gov/gene/90268	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006828	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	FAM171B	http://www.ncbi.nlm.nih.gov/gene/165215	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006829	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	FAM82A2	http://www.ncbi.nlm.nih.gov/gene/55177	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006830	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	FANCF	http://www.ncbi.nlm.nih.gov/gene/2188	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006831	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	FOXN3	http://www.ncbi.nlm.nih.gov/gene/1112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006832	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	FOXO1	http://www.ncbi.nlm.nih.gov/gene/2308	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006833	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	FOXO3	http://www.ncbi.nlm.nih.gov/gene/2310	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006834	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	FOXP2	http://www.ncbi.nlm.nih.gov/gene/93986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006835	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	FZD10	http://www.ncbi.nlm.nih.gov/gene/11211	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006836	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	G3BP2	http://www.ncbi.nlm.nih.gov/gene/9908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006837	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	GART	http://www.ncbi.nlm.nih.gov/gene/2618	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006838	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	GCNT2	http://www.ncbi.nlm.nih.gov/gene/2651	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006839	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	GDAP1	http://www.ncbi.nlm.nih.gov/gene/54332	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006840	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	GFPT1	http://www.ncbi.nlm.nih.gov/gene/2673	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006841	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	GIT2	http://www.ncbi.nlm.nih.gov/gene/9815	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006842	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	GLS	http://www.ncbi.nlm.nih.gov/gene/2744	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006843	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	GMFB	http://www.ncbi.nlm.nih.gov/gene/2764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006844	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	GMPPB	http://www.ncbi.nlm.nih.gov/gene/29925	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006845	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	GNA13	http://www.ncbi.nlm.nih.gov/gene/10672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006846	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	GOLGA5	http://www.ncbi.nlm.nih.gov/gene/9950	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006847	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	GORASP2	http://www.ncbi.nlm.nih.gov/gene/26003	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006848	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	GRB2	http://www.ncbi.nlm.nih.gov/gene/2885	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006849	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	GRPEL2	http://www.ncbi.nlm.nih.gov/gene/134266	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006850	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	HACE1	http://www.ncbi.nlm.nih.gov/gene/57531	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006851	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	HACL1	http://www.ncbi.nlm.nih.gov/gene/26061	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006852	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	HELLS	http://www.ncbi.nlm.nih.gov/gene/3070	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006853	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	HIATL1	http://www.ncbi.nlm.nih.gov/gene/84641	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006854	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	HMCN1	http://www.ncbi.nlm.nih.gov/gene/83872	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006855	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	HSPA13	http://www.ncbi.nlm.nih.gov/gene/6782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006856	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	HSPA9	http://www.ncbi.nlm.nih.gov/gene/3313	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006857	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ICMT	http://www.ncbi.nlm.nih.gov/gene/23463	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006858	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	IDH3A	http://www.ncbi.nlm.nih.gov/gene/3419	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006859	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	IGF2BP3	http://www.ncbi.nlm.nih.gov/gene/10643	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006860	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	IKZF5	http://www.ncbi.nlm.nih.gov/gene/64376	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006861	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	IMPA1	http://www.ncbi.nlm.nih.gov/gene/3612	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006862	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	INPP4A	http://www.ncbi.nlm.nih.gov/gene/3631	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006863	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	IPO7	http://www.ncbi.nlm.nih.gov/gene/10527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006864	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	IPO9	http://www.ncbi.nlm.nih.gov/gene/55705	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006865	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	IPPK	http://www.ncbi.nlm.nih.gov/gene/64768	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006866	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	KBTBD11	http://www.ncbi.nlm.nih.gov/gene/9920	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006867	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	KBTBD2	http://www.ncbi.nlm.nih.gov/gene/25948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006868	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	KIAA1143	http://www.ncbi.nlm.nih.gov/gene/57456	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006869	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	KIAA1211	http://www.ncbi.nlm.nih.gov/gene/57482	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006870	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	KIAA1462	http://www.ncbi.nlm.nih.gov/gene/57608	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006871	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	KIAA1712	http://www.ncbi.nlm.nih.gov/gene/80817	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006872	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	KLHL13	http://www.ncbi.nlm.nih.gov/gene/90293	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006873	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	KLHL21	http://www.ncbi.nlm.nih.gov/gene/9903	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006874	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	KRIT1	http://www.ncbi.nlm.nih.gov/gene/889	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006875	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	LANCL1	http://www.ncbi.nlm.nih.gov/gene/10314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006876	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	LCOR	http://www.ncbi.nlm.nih.gov/gene/84458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006877	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	LDLRAP1	http://www.ncbi.nlm.nih.gov/gene/26119	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006878	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	LIG4	http://www.ncbi.nlm.nih.gov/gene/3981	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006879	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	LIN9	http://www.ncbi.nlm.nih.gov/gene/286826	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006880	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	LMO4	http://www.ncbi.nlm.nih.gov/gene/8543	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006881	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	LNX2	http://www.ncbi.nlm.nih.gov/gene/222484	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006882	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	LONP2	http://www.ncbi.nlm.nih.gov/gene/83752	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006883	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	LRP12	http://www.ncbi.nlm.nih.gov/gene/29967	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006884	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	LRRC58	http://www.ncbi.nlm.nih.gov/gene/116064	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006885	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	MAP2K1	http://www.ncbi.nlm.nih.gov/gene/5604	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006886	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	MAP3K1	http://www.ncbi.nlm.nih.gov/gene/4214	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006887	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	MAP7D2	http://www.ncbi.nlm.nih.gov/gene/256714	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006888	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	MAPK1	http://www.ncbi.nlm.nih.gov/gene/5594	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006889	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	MAPK6	http://www.ncbi.nlm.nih.gov/gene/5597	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006890	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	MCC	http://www.ncbi.nlm.nih.gov/gene/4163	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006891	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	MEF2D	http://www.ncbi.nlm.nih.gov/gene/4209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006892	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	MGST1	http://www.ncbi.nlm.nih.gov/gene/4257	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006893	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	MLL5	http://www.ncbi.nlm.nih.gov/gene/55904	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006894	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	MORC3	http://www.ncbi.nlm.nih.gov/gene/23515	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006895	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	MPZ	http://www.ncbi.nlm.nih.gov/gene/4359	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006896	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	MRPL35	http://www.ncbi.nlm.nih.gov/gene/51318	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006897	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	MTHFD2	http://www.ncbi.nlm.nih.gov/gene/10797	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006898	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	MTMR9	http://www.ncbi.nlm.nih.gov/gene/66036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006899	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	MTPN	http://www.ncbi.nlm.nih.gov/gene/767558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006900	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	MXD4	http://www.ncbi.nlm.nih.gov/gene/10608	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006901	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NAB1	http://www.ncbi.nlm.nih.gov/gene/4664	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006902	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NARS	http://www.ncbi.nlm.nih.gov/gene/4677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006903	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NCAPG2	http://www.ncbi.nlm.nih.gov/gene/54892	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006904	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NDE1	http://www.ncbi.nlm.nih.gov/gene/54820	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006905	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NDUFA8	http://www.ncbi.nlm.nih.gov/gene/4702	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006906	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NDUFC1	http://www.ncbi.nlm.nih.gov/gene/4717	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006907	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NET1	http://www.ncbi.nlm.nih.gov/gene/10276	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006908	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NFAT5	http://www.ncbi.nlm.nih.gov/gene/10725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006909	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006910	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NFXL1	http://www.ncbi.nlm.nih.gov/gene/152518	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006911	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NISCH	http://www.ncbi.nlm.nih.gov/gene/11188	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006912	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NKD1	http://www.ncbi.nlm.nih.gov/gene/85407	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006913	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NR3C1	http://www.ncbi.nlm.nih.gov/gene/2908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006914	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NUCKS1	http://www.ncbi.nlm.nih.gov/gene/64710	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006915	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NUDCD2	http://www.ncbi.nlm.nih.gov/gene/134492	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006916	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NUP35	http://www.ncbi.nlm.nih.gov/gene/129401	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006917	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	NUSAP1	http://www.ncbi.nlm.nih.gov/gene/51203	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006918	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	OAS2	http://www.ncbi.nlm.nih.gov/gene/4939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006919	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ORC2L	http://www.ncbi.nlm.nih.gov/gene/4999	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006920	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	OSTM1	http://www.ncbi.nlm.nih.gov/gene/28962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006921	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PABPC4L	http://www.ncbi.nlm.nih.gov/gene/132430	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006922	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PACRGL	http://www.ncbi.nlm.nih.gov/gene/133015	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006923	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PAK6	http://www.ncbi.nlm.nih.gov/gene/56924	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006924	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PALM2-AKAP2	http://www.ncbi.nlm.nih.gov/gene/114299	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006925	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PAN3	http://www.ncbi.nlm.nih.gov/gene/255967	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006926	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PDCD4	http://www.ncbi.nlm.nih.gov/gene/27250	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006927	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PGAP1	http://www.ncbi.nlm.nih.gov/gene/80055	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006928	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PHACTR4	http://www.ncbi.nlm.nih.gov/gene/65979	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006929	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PHLPP2	http://www.ncbi.nlm.nih.gov/gene/23035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006930	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PIAS4	http://www.ncbi.nlm.nih.gov/gene/51588	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006931	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PIGA	http://www.ncbi.nlm.nih.gov/gene/5277	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006932	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PIGO	http://www.ncbi.nlm.nih.gov/gene/84720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006933	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PIP5K2B	http://www.ncbi.nlm.nih.gov/gene/ 8396	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006934	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PLEKHA2	http://www.ncbi.nlm.nih.gov/gene/59339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006935	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PLS3	http://www.ncbi.nlm.nih.gov/gene/5358	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006936	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PNKD	http://www.ncbi.nlm.nih.gov/gene/25953	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006937	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	POLR3F	http://www.ncbi.nlm.nih.gov/gene/10621	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006938	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PPHLN1	http://www.ncbi.nlm.nih.gov/gene/51535	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006939	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PPM1B	http://www.ncbi.nlm.nih.gov/gene/5495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006940	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PRDM1	http://www.ncbi.nlm.nih.gov/gene/639	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006941	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PRPF38A	http://www.ncbi.nlm.nih.gov/gene/84950	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006942	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PSEN1	http://www.ncbi.nlm.nih.gov/gene/5663	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006943	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PSMD11	http://www.ncbi.nlm.nih.gov/gene/5717	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006944	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PSME4	http://www.ncbi.nlm.nih.gov/gene/23198	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006945	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PTPLAD1	http://www.ncbi.nlm.nih.gov/gene/51495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006946	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	PTPLAD2	http://www.ncbi.nlm.nih.gov/gene/401494	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006947	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	QRICH1	http://www.ncbi.nlm.nih.gov/gene/54870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006948	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	RAB11A	http://www.ncbi.nlm.nih.gov/gene/8766	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006949	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	RAB11FIP2	http://www.ncbi.nlm.nih.gov/gene/22841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006950	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	RARB	http://www.ncbi.nlm.nih.gov/gene/5915	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006951	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	RBL1	http://www.ncbi.nlm.nih.gov/gene/5933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006952	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	RBM8A	http://www.ncbi.nlm.nih.gov/gene/9939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006953	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	RBPSUH	http://www.ncbi.nlm.nih.gov/gene/3516	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006954	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	RIF1	http://www.ncbi.nlm.nih.gov/gene/55183	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006955	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ROCK2	http://www.ncbi.nlm.nih.gov/gene/9475	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006956	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	RRM2B	http://www.ncbi.nlm.nih.gov/gene/50484	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006957	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	RUFY2	http://www.ncbi.nlm.nih.gov/gene/55680	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006958	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	S100PBP	http://www.ncbi.nlm.nih.gov/gene/64766	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006959	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SCAMP1	http://www.ncbi.nlm.nih.gov/gene/9522	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006960	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SDHD	http://www.ncbi.nlm.nih.gov/gene/6392	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006961	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SDR42E1	http://www.ncbi.nlm.nih.gov/gene/93517	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006962	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SEC61A1	http://www.ncbi.nlm.nih.gov/gene/29927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006963	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SERTAD2	http://www.ncbi.nlm.nih.gov/gene/9792	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006964	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SETD6	http://www.ncbi.nlm.nih.gov/gene/79918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006965	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SFRS18	http://www.ncbi.nlm.nih.gov/gene/25957	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006966	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SH3BGRL2	http://www.ncbi.nlm.nih.gov/gene/83699	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006967	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SIAE	http://www.ncbi.nlm.nih.gov/gene/54414	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006968	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SIKE1	http://www.ncbi.nlm.nih.gov/gene/80143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006969	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SLBP	http://www.ncbi.nlm.nih.gov/gene/7884	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006970	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SMAD4	http://www.ncbi.nlm.nih.gov/gene/4089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006971	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SMC1A	http://www.ncbi.nlm.nih.gov/gene/8243	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006972	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SPOPL	http://www.ncbi.nlm.nih.gov/gene/339745	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006973	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SPTY2D1	http://www.ncbi.nlm.nih.gov/gene/144108	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006974	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	STAM2	http://www.ncbi.nlm.nih.gov/gene/10254	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006975	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	STYX	http://www.ncbi.nlm.nih.gov/gene/6815	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006976	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SUPT6H	http://www.ncbi.nlm.nih.gov/gene/6830	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006977	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	SYNCRIP	http://www.ncbi.nlm.nih.gov/gene/10492	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006978	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	TAF4B	http://www.ncbi.nlm.nih.gov/gene/6875	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006979	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	TES	http://www.ncbi.nlm.nih.gov/gene/26136	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006980	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	THOC5	http://www.ncbi.nlm.nih.gov/gene/8563	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006981	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	TJP1	http://www.ncbi.nlm.nih.gov/gene/7082	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006982	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	TNKS	http://www.ncbi.nlm.nih.gov/gene/8658	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006983	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	TRAPPC2	http://www.ncbi.nlm.nih.gov/gene/6399	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006984	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	TRIM26	http://www.ncbi.nlm.nih.gov/gene/7726	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006985	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	TRIM33	http://www.ncbi.nlm.nih.gov/gene/51592	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006986	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	TRIM65	http://www.ncbi.nlm.nih.gov/gene/201292	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006987	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	TSG101	http://www.ncbi.nlm.nih.gov/gene/7251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006988	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	TWISTNB	http://www.ncbi.nlm.nih.gov/gene/221830	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006989	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	TXNDC16	http://www.ncbi.nlm.nih.gov/gene/57544	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006990	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	UBE2D3	http://www.ncbi.nlm.nih.gov/gene/100037280	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006991	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	UBN2	http://www.ncbi.nlm.nih.gov/gene/254048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006992	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	UBQLN1	http://www.ncbi.nlm.nih.gov/gene/29979	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006993	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	UTP14C	http://www.ncbi.nlm.nih.gov/gene/9724	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006994	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	VASH2	http://www.ncbi.nlm.nih.gov/gene/79805	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006995	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	VEZT	http://www.ncbi.nlm.nih.gov/gene/55591	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006996	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	VPS4B	http://www.ncbi.nlm.nih.gov/gene/9525	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006997	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	WDFY3	http://www.ncbi.nlm.nih.gov/gene/23001	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006998	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	XPOT	http://www.ncbi.nlm.nih.gov/gene/11260	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00006999	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	XRCC4	http://www.ncbi.nlm.nih.gov/gene/7518	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007000	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	XRN2	http://www.ncbi.nlm.nih.gov/gene/22803	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007001	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZBTB33	http://www.ncbi.nlm.nih.gov/gene/10009	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007002	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZBTB38	http://www.ncbi.nlm.nih.gov/gene/253461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007003	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZC3H12C	http://www.ncbi.nlm.nih.gov/gene/85463	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007004	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZFP36	http://www.ncbi.nlm.nih.gov/gene/7538	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007005	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZFP90	http://www.ncbi.nlm.nih.gov/gene/146198	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007006	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZNF12	http://www.ncbi.nlm.nih.gov/gene/7559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007007	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZNF215	http://www.ncbi.nlm.nih.gov/gene/7762	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007008	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZNF28	http://www.ncbi.nlm.nih.gov/gene/7576	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007009	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZNF320	http://www.ncbi.nlm.nih.gov/gene/162967	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007010	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZNF35	http://www.ncbi.nlm.nih.gov/gene/7584	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007011	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZNF382	http://www.ncbi.nlm.nih.gov/gene/84911	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007012	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZNF512B	http://www.ncbi.nlm.nih.gov/gene/57473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007013	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZNF655	http://www.ncbi.nlm.nih.gov/gene/79027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007014	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZNF682	http://www.ncbi.nlm.nih.gov/gene/91120	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007015	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZNF717	http://www.ncbi.nlm.nih.gov/gene/100131827	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007016	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZNF738	http://www.ncbi.nlm.nih.gov/gene/148203	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007017	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZNF750	http://www.ncbi.nlm.nih.gov/gene/79755	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007018	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BC-3	-	Host	mRNA	ZNF772	http://www.ncbi.nlm.nih.gov/gene/400720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007019	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	ABL2	http://www.ncbi.nlm.nih.gov/gene/27	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007020	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	APTX	http://www.ncbi.nlm.nih.gov/gene/54840	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007021	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	ARIH1	http://www.ncbi.nlm.nih.gov/gene/25820	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007022	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	BBX	http://www.ncbi.nlm.nih.gov/gene/56987	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007023	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	BICD2	http://www.ncbi.nlm.nih.gov/gene/23299	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007024	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	BTAF1	http://www.ncbi.nlm.nih.gov/gene/9044	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007025	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007026	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	CD59	http://www.ncbi.nlm.nih.gov/gene/966	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007027	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	CDC2L5	http://www.ncbi.nlm.nih.gov/gene/8621 	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007028	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	CDCA8	http://www.ncbi.nlm.nih.gov/gene/55143	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007029	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	CDR2	http://www.ncbi.nlm.nih.gov/gene/1039	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007030	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	CFL2	http://www.ncbi.nlm.nih.gov/gene/1073	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007031	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	CHIC2	http://www.ncbi.nlm.nih.gov/gene/26511	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007032	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	DDX21	http://www.ncbi.nlm.nih.gov/gene/9188	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007033	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	DNM2	http://www.ncbi.nlm.nih.gov/gene/1785	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007034	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	E2F7	http://www.ncbi.nlm.nih.gov/gene/144455	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007035	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	EAF1	http://www.ncbi.nlm.nih.gov/gene/85403	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007036	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	FIGNL1	http://www.ncbi.nlm.nih.gov/gene/63979	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007037	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	GART	http://www.ncbi.nlm.nih.gov/gene/2618	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007038	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	GCNT2	http://www.ncbi.nlm.nih.gov/gene/2651	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007039	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	GFPT1	http://www.ncbi.nlm.nih.gov/gene/2673	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007040	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	GNS	http://www.ncbi.nlm.nih.gov/gene/2799	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007041	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	GOLGA5	http://www.ncbi.nlm.nih.gov/gene/9950	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007042	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	GRB2	http://www.ncbi.nlm.nih.gov/gene/2885	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007043	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	IPO9	http://www.ncbi.nlm.nih.gov/gene/55705	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007044	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	KBTBD2	http://www.ncbi.nlm.nih.gov/gene/25948	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007045	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	LMO4	http://www.ncbi.nlm.nih.gov/gene/8543	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007046	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	LNX2	http://www.ncbi.nlm.nih.gov/gene/222484	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007047	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	MAPK6	http://www.ncbi.nlm.nih.gov/gene/5597	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007048	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	MBTD1	http://www.ncbi.nlm.nih.gov/gene/54799	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007049	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	MPZ	http://www.ncbi.nlm.nih.gov/gene/4359	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007050	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	NDE1	http://www.ncbi.nlm.nih.gov/gene/54820	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007051	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	NDUFA8	http://www.ncbi.nlm.nih.gov/gene/4702	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007052	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	NISCH	http://www.ncbi.nlm.nih.gov/gene/11188	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007053	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	NR3C1	http://www.ncbi.nlm.nih.gov/gene/2908	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007054	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	PFTK1	http://www.ncbi.nlm.nih.gov/gene/5218 	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007055	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	PHTF2	http://www.ncbi.nlm.nih.gov/gene/57157	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007056	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	PIP5K2B	http://www.ncbi.nlm.nih.gov/gene/ 8396	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007057	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	PLEKHA2	http://www.ncbi.nlm.nih.gov/gene/59339	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007058	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	PPHLN1	http://www.ncbi.nlm.nih.gov/gene/51535	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007059	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	PRDM1	http://www.ncbi.nlm.nih.gov/gene/639	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007060	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	PSEN1	http://www.ncbi.nlm.nih.gov/gene/5663	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007061	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	PSME4	http://www.ncbi.nlm.nih.gov/gene/23198	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007062	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	RBL1	http://www.ncbi.nlm.nih.gov/gene/5933	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007063	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	RBM8A	http://www.ncbi.nlm.nih.gov/gene/9939	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007064	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	RCOR3	http://www.ncbi.nlm.nih.gov/gene/55758	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007065	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	ROCK2	http://www.ncbi.nlm.nih.gov/gene/9475	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007066	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	SLBP	http://www.ncbi.nlm.nih.gov/gene/7884	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007067	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	SNTB2	http://www.ncbi.nlm.nih.gov/gene/6645	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007068	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	STRN	http://www.ncbi.nlm.nih.gov/gene/6801	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007069	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	SUPT6H	http://www.ncbi.nlm.nih.gov/gene/6830	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007070	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	TES	http://www.ncbi.nlm.nih.gov/gene/26136	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007071	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	TPD52	http://www.ncbi.nlm.nih.gov/gene/7163	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007072	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	TRIM25	http://www.ncbi.nlm.nih.gov/gene/7706	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007073	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	TRIM33	http://www.ncbi.nlm.nih.gov/gene/51592	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007074	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	XPOT	http://www.ncbi.nlm.nih.gov/gene/11260	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007075	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	XRN2	http://www.ncbi.nlm.nih.gov/gene/22803	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007076	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	YWHAB	http://www.ncbi.nlm.nih.gov/gene/7529	-	PAR-CLIP.	22100165	Table S10B Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-1 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007077	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	BJAB/miR-K4-3p cells	-	Host	mRNA	ZFP90	http://www.ncbi.nlm.nih.gov/gene/146198	-	PAR-CLIP.	22100165	Table S10E Genes that contribute to the enrichments of PAR-CLIP targets of miR-K4-3p from BC-3 libraries in downregulated mRNAs in BJAB/miR-K4-3p cells.
VHID00007078	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC3	-	Host	mRNA	Bach1		-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00007079	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BCBL1	-	Host	mRNA	Bach1		-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00007080	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BCBL1	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00007081	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BCBL1	-	Host	mRNA	RBL2	http://www.ncbi.nlm.nih.gov/gene/5934	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00007082	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K12-4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	-	-	Host	Protein	DNMT1	http://www.ncbi.nlm.nih.gov/gene/5934	Upregulation	ChIP and KSHV genome array, Quantitative RT-PCR, MeDIP, Luciferase assay.	20071580	Viral miRNA, K12-4-5p, was found to have a sequence targeting retinoblastoma (Rb)-like protein 2 (Rbl2), which is a known repressor of DNA methyl transferase 3a and 3b mRNA transcription. We show that ectopic expression of miR-K12-4-5p reduces Rbl2 protein expression and increases DNMT1, -3a, and -3b mRNA levels relative to the levels for control cells.
VHID00007083	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K12-4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	-	-	Host	Protein	RBL2	http://www.ncbi.nlm.nih.gov/gene/5934	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00007084	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K12-4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	-	-	Host	Protein	RBL2(Rbl2)	http://www.ncbi.nlm.nih.gov/gene/5934	Downregulation	Quantitative RT-PCR, Luciferase assay, Infection, Reconstitution of recombinant virus, ChIP and KSHV genome array, MeDIP, Genome copy number assay.	20071580	One viral miRNA, K12-4-5p, was found to have a sequence targeting retinoblastoma (Rb)-like protein 2 (Rbl2), which is a known repressor of DNA methyl transferase 3a and 3b mRNA transcription. We show that ectopic expression of miR-K12-4-5p reduces Rbl2 protein expression and increases DNMT1, -3a, and -3b mRNA levels relative to the levels for control cells.
VHID00007085	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K12-4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	-	-	Host	mRNA	RBL2	http://www.ncbi.nlm.nih.gov/gene/5934	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00007086	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ABCE1	http://www.ncbi.nlm.nih.gov/gene/647150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007087	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ABHD2	http://www.ncbi.nlm.nih.gov/gene/11057	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007088	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ABLIM1	http://www.ncbi.nlm.nih.gov/gene/3983	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007089	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ABT1	http://www.ncbi.nlm.nih.gov/gene/29777	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007090	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ACBD3	http://www.ncbi.nlm.nih.gov/gene/64746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007091	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	AFF4	http://www.ncbi.nlm.nih.gov/gene/27125	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007092	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	AIMP1	http://www.ncbi.nlm.nih.gov/gene/9255	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007093	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ANLN	http://www.ncbi.nlm.nih.gov/gene/54443	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007094	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	AP3M2	http://www.ncbi.nlm.nih.gov/gene/10947	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007095	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ARFGEF1	http://www.ncbi.nlm.nih.gov/gene/10565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007096	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ARL5B	http://www.ncbi.nlm.nih.gov/gene/221079	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007097	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007098	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	BAZ1B	http://www.ncbi.nlm.nih.gov/gene/9031	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007099	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	BBX	http://www.ncbi.nlm.nih.gov/gene/56987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007100	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	BCL2	http://www.ncbi.nlm.nih.gov/gene/596	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007101	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	BCL7B	http://www.ncbi.nlm.nih.gov/gene/9275	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007102	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	BRWD1	http://www.ncbi.nlm.nih.gov/gene/54014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007103	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	BTBD1	http://www.ncbi.nlm.nih.gov/gene/53339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007104	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	C4orf46	http://www.ncbi.nlm.nih.gov/gene/201725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007105	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	C7orf60	http://www.ncbi.nlm.nih.gov/gene/154743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007106	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	CALM2	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007107	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	CCDC93	http://www.ncbi.nlm.nih.gov/gene/54520	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007108	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007109	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	CDC23	http://www.ncbi.nlm.nih.gov/gene/8697	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007110	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	CLCN5	http://www.ncbi.nlm.nih.gov/gene/1184	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007111	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	COG5	http://www.ncbi.nlm.nih.gov/gene/10466	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007112	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	COX11	http://www.ncbi.nlm.nih.gov/gene/1353	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007113	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	CPEB2	http://www.ncbi.nlm.nih.gov/gene/132864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007114	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	CPEB4	http://www.ncbi.nlm.nih.gov/gene/80315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007115	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	CPSF6	http://www.ncbi.nlm.nih.gov/gene/11052	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007116	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	CREBZF	http://www.ncbi.nlm.nih.gov/gene/58487	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007117	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	CSRNP2	http://www.ncbi.nlm.nih.gov/gene/81566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007118	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	CUX1	http://www.ncbi.nlm.nih.gov/gene/1523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007119	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	DENND5B	http://www.ncbi.nlm.nih.gov/gene/160518	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007120	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	DPY19L1	http://www.ncbi.nlm.nih.gov/gene/23333	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007121	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	DSTYK	http://www.ncbi.nlm.nih.gov/gene/25778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007122	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	E2F3	http://www.ncbi.nlm.nih.gov/gene/1871	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007123	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	EIF4G3	http://www.ncbi.nlm.nih.gov/gene/8672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007124	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	FBXO11	http://www.ncbi.nlm.nih.gov/gene/80204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007125	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	FOXN2	http://www.ncbi.nlm.nih.gov/gene/3344	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007126	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	FRS2	http://www.ncbi.nlm.nih.gov/gene/10818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007127	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	FSTL5	http://www.ncbi.nlm.nih.gov/gene/56884	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007128	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	FZD6	http://www.ncbi.nlm.nih.gov/gene/8323	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007129	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	G2E3	http://www.ncbi.nlm.nih.gov/gene/55632	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007130	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	GAB1	http://www.ncbi.nlm.nih.gov/gene/2549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007131	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	GNL3L	http://www.ncbi.nlm.nih.gov/gene/54552	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007132	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	HACE1	http://www.ncbi.nlm.nih.gov/gene/57531	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007133	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	HIAT1	http://www.ncbi.nlm.nih.gov/gene/64645	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007134	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	IGF2R	http://www.ncbi.nlm.nih.gov/gene/3482	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007135	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	IQGAP1	http://www.ncbi.nlm.nih.gov/gene/8826	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007136	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	IRF2BP2	http://www.ncbi.nlm.nih.gov/gene/359948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007137	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	KRCC1	http://www.ncbi.nlm.nih.gov/gene/51315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007138	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	L2HGDH	http://www.ncbi.nlm.nih.gov/gene/79944	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007139	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	LARP4	http://www.ncbi.nlm.nih.gov/gene/113251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007140	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	LIMA1	http://www.ncbi.nlm.nih.gov/gene/51474	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007141	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	LIN28B	http://www.ncbi.nlm.nih.gov/gene/389421	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007142	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	LRRC59	http://www.ncbi.nlm.nih.gov/gene/55379	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007143	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	MED17	http://www.ncbi.nlm.nih.gov/gene/9440	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007144	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	MIER3	http://www.ncbi.nlm.nih.gov/gene/166968	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007145	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	MKRN3	http://www.ncbi.nlm.nih.gov/gene/7681	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007146	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	MPP5	http://www.ncbi.nlm.nih.gov/gene/64398	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007147	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	MRPS35	http://www.ncbi.nlm.nih.gov/gene/60488	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007148	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	MXI1	http://www.ncbi.nlm.nih.gov/gene/4601	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007149	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	NFAT5	http://www.ncbi.nlm.nih.gov/gene/10725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007150	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	NFE2L2	http://www.ncbi.nlm.nih.gov/gene/4780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007151	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007152	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	NLGN1	http://www.ncbi.nlm.nih.gov/gene/22871	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007153	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	NUPL1	http://www.ncbi.nlm.nih.gov/gene/9818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007154	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	PAPD5	http://www.ncbi.nlm.nih.gov/gene/64282	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007155	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	PHF17	http://www.ncbi.nlm.nih.gov/gene/79960	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007156	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	PIP5K2B	http://www.ncbi.nlm.nih.gov/gene/ 8396	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007157	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	PKIA	http://www.ncbi.nlm.nih.gov/gene/5569	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007158	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	POLH	http://www.ncbi.nlm.nih.gov/gene/5429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007159	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	PPP1R12A	http://www.ncbi.nlm.nih.gov/gene/4659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007160	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	PPP1R15B	http://www.ncbi.nlm.nih.gov/gene/84919	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007161	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	PPP6C	http://www.ncbi.nlm.nih.gov/gene/5537	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007162	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	PTEN	http://www.ncbi.nlm.nih.gov/gene/11191	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007163	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	PTP4A1	http://www.ncbi.nlm.nih.gov/gene/7803	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007164	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	PXMP3	http://www.ncbi.nlm.nih.gov/gene/5828 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007165	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	RAB8B	http://www.ncbi.nlm.nih.gov/gene/51762	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007166	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	RABGAP1	http://www.ncbi.nlm.nih.gov/gene/23637	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007167	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	RACGAP1P	http://www.ncbi.nlm.nih.gov/gene/29127	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007168	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	RAD23B	http://www.ncbi.nlm.nih.gov/gene/5887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007169	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	RBL2	http://www.ncbi.nlm.nih.gov/gene/5934	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007170	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	RIOK3	http://www.ncbi.nlm.nih.gov/gene/8780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007171	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	RNF149	http://www.ncbi.nlm.nih.gov/gene/284996	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007172	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007173	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	RPS6KA5	http://www.ncbi.nlm.nih.gov/gene/9252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007174	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	RRM2B	http://www.ncbi.nlm.nih.gov/gene/50484	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007175	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	RUNX1	http://www.ncbi.nlm.nih.gov/gene/861	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007176	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	SERP1	http://www.ncbi.nlm.nih.gov/gene/27230	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007177	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	SLC1A5	http://www.ncbi.nlm.nih.gov/gene/6510	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007178	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	SLC36A1	http://www.ncbi.nlm.nih.gov/gene/206358	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007179	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	SLMO2	http://www.ncbi.nlm.nih.gov/gene/51012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007180	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	SOCS4	http://www.ncbi.nlm.nih.gov/gene/122809	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007181	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	SPRED2	http://www.ncbi.nlm.nih.gov/gene/200734	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007182	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	STRBP	http://www.ncbi.nlm.nih.gov/gene/55342	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007183	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	STRN3	http://www.ncbi.nlm.nih.gov/gene/29966	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007184	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	THAP5	http://www.ncbi.nlm.nih.gov/gene/168451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007185	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	TIMM17A	http://www.ncbi.nlm.nih.gov/gene/10440	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007186	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	TMEM68	http://www.ncbi.nlm.nih.gov/gene/137695	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007187	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	TNRC6A	http://www.ncbi.nlm.nih.gov/gene/27327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007188	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	TPD52	http://www.ncbi.nlm.nih.gov/gene/7163	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007189	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	TRA2A	http://www.ncbi.nlm.nih.gov/gene/29896	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007190	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	TRUB1	http://www.ncbi.nlm.nih.gov/gene/142940	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007191	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	UBE2K	http://www.ncbi.nlm.nih.gov/gene/3093	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007192	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	VEZT	http://www.ncbi.nlm.nih.gov/gene/55591	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007193	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	WASL	http://www.ncbi.nlm.nih.gov/gene/8976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007194	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	YME1L1	http://www.ncbi.nlm.nih.gov/gene/10730	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007195	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	YPEL5	http://www.ncbi.nlm.nih.gov/gene/51646	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007196	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	YWHAG	http://www.ncbi.nlm.nih.gov/gene/7532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007197	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ZBTB38	http://www.ncbi.nlm.nih.gov/gene/253461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007198	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ZNF160	http://www.ncbi.nlm.nih.gov/gene/90338	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007199	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ZNF238	http://www.ncbi.nlm.nih.gov/gene/10472	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007200	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ZNF264	http://www.ncbi.nlm.nih.gov/gene/9422	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007201	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ZNF281	http://www.ncbi.nlm.nih.gov/gene/23528	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007202	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ZNF292	http://www.ncbi.nlm.nih.gov/gene/23036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007203	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ZNF365	http://www.ncbi.nlm.nih.gov/gene/22891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007204	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ZNF652	http://www.ncbi.nlm.nih.gov/gene/22834	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007205	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ZNF780B	http://www.ncbi.nlm.nih.gov/gene/163131	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007206	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-1	-	Host	mRNA	ZNF805	http://www.ncbi.nlm.nih.gov/gene/390980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007207	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	ABCE1	http://www.ncbi.nlm.nih.gov/gene/647150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007208	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	ABLIM1	http://www.ncbi.nlm.nih.gov/gene/3983	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007209	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	ABT1	http://www.ncbi.nlm.nih.gov/gene/29777	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007210	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	ADCY7	http://www.ncbi.nlm.nih.gov/gene/113	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007211	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	AIMP1	http://www.ncbi.nlm.nih.gov/gene/9255	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007212	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	AP3M2	http://www.ncbi.nlm.nih.gov/gene/10947	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007213	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	ARFGEF1	http://www.ncbi.nlm.nih.gov/gene/10565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007214	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007215	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	BRWD1	http://www.ncbi.nlm.nih.gov/gene/54014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007216	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	BTBD1	http://www.ncbi.nlm.nih.gov/gene/53339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007217	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	CALM2	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007218	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	CCDC93	http://www.ncbi.nlm.nih.gov/gene/54520	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007219	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007220	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	CDC23	http://www.ncbi.nlm.nih.gov/gene/8697	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007221	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	CDC42SE2	http://www.ncbi.nlm.nih.gov/gene/56990	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007222	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	CERK	http://www.ncbi.nlm.nih.gov/gene/64781	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007223	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	CLCN5	http://www.ncbi.nlm.nih.gov/gene/1184	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007224	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	COG5	http://www.ncbi.nlm.nih.gov/gene/10466	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007225	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	COX11	http://www.ncbi.nlm.nih.gov/gene/1353	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007226	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	CPEB2	http://www.ncbi.nlm.nih.gov/gene/132864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007227	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	CREBZF	http://www.ncbi.nlm.nih.gov/gene/58487	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007228	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	CTDSP2	http://www.ncbi.nlm.nih.gov/gene/10106	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007229	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	DENND5B	http://www.ncbi.nlm.nih.gov/gene/160518	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007230	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	DNAJB14	http://www.ncbi.nlm.nih.gov/gene/79982	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007231	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	DPY19L1	http://www.ncbi.nlm.nih.gov/gene/23333	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007232	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	E2F3	http://www.ncbi.nlm.nih.gov/gene/1871	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007233	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	EIF2B1	http://www.ncbi.nlm.nih.gov/gene/1967	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007234	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	EIF4G3	http://www.ncbi.nlm.nih.gov/gene/8672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007235	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	FAM76B	http://www.ncbi.nlm.nih.gov/gene/143684	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007236	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	FNDC3B	http://www.ncbi.nlm.nih.gov/gene/64778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007237	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	FRS2	http://www.ncbi.nlm.nih.gov/gene/10818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007238	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	FZD6	http://www.ncbi.nlm.nih.gov/gene/8323	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007239	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	G2E3	http://www.ncbi.nlm.nih.gov/gene/55632	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007240	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	GLS	http://www.ncbi.nlm.nih.gov/gene/2744	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007241	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	GNPTAB	http://www.ncbi.nlm.nih.gov/gene/79158	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007242	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	HIAT1	http://www.ncbi.nlm.nih.gov/gene/64645	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007243	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	IGF1R	http://www.ncbi.nlm.nih.gov/gene/3480	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007244	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	IGSF11	http://www.ncbi.nlm.nih.gov/gene/152404	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007245	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	IQGAP1	http://www.ncbi.nlm.nih.gov/gene/8826	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007246	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	IRF2BP2	http://www.ncbi.nlm.nih.gov/gene/359948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007247	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	KPNA4	http://www.ncbi.nlm.nih.gov/gene/3840	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007248	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	KRAS	http://www.ncbi.nlm.nih.gov/gene/3845	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007249	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	L2HGDH	http://www.ncbi.nlm.nih.gov/gene/79944	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007250	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	LIMA1	http://www.ncbi.nlm.nih.gov/gene/51474	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007251	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	LONP2	http://www.ncbi.nlm.nih.gov/gene/83752	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007252	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	LRCH3	http://www.ncbi.nlm.nih.gov/gene/84859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007253	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	LRRC59	http://www.ncbi.nlm.nih.gov/gene/55379	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007254	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	MED17	http://www.ncbi.nlm.nih.gov/gene/9440	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007255	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	MKRN3	http://www.ncbi.nlm.nih.gov/gene/7681	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007256	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	MPP5	http://www.ncbi.nlm.nih.gov/gene/64398	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007257	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	MRPS35	http://www.ncbi.nlm.nih.gov/gene/60488	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007258	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	NFAT5	http://www.ncbi.nlm.nih.gov/gene/10725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007259	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	NFE2L2	http://www.ncbi.nlm.nih.gov/gene/4780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007260	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	OGFOD2	http://www.ncbi.nlm.nih.gov/gene/79676	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007261	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	PAPD5	http://www.ncbi.nlm.nih.gov/gene/64282	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007262	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	PAPOLG	http://www.ncbi.nlm.nih.gov/gene/64895	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007263	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	PHACTR4	http://www.ncbi.nlm.nih.gov/gene/65979	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007264	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	PHF17	http://www.ncbi.nlm.nih.gov/gene/79960	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007265	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	POLH	http://www.ncbi.nlm.nih.gov/gene/5429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007266	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	PTEN	http://www.ncbi.nlm.nih.gov/gene/11191	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007267	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	RACGAP1P	http://www.ncbi.nlm.nih.gov/gene/29127	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007268	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	RBL2	http://www.ncbi.nlm.nih.gov/gene/5934	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007269	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	RNF187	http://www.ncbi.nlm.nih.gov/gene/149603	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007270	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	RPS6KA5	http://www.ncbi.nlm.nih.gov/gene/9252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007271	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	RUNX1	http://www.ncbi.nlm.nih.gov/gene/861	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007272	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	SLAIN2	http://www.ncbi.nlm.nih.gov/gene/57606	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007273	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	SLC1A5	http://www.ncbi.nlm.nih.gov/gene/6510	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007274	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	SLMO2	http://www.ncbi.nlm.nih.gov/gene/51012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007275	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	STAMBP	http://www.ncbi.nlm.nih.gov/gene/10617	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007276	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	STRN3	http://www.ncbi.nlm.nih.gov/gene/29966	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007277	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	TIMM17A	http://www.ncbi.nlm.nih.gov/gene/10440	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007278	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	TMEM123	http://www.ncbi.nlm.nih.gov/gene/114908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007279	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	TMEM194B	http://www.ncbi.nlm.nih.gov/gene/100131211	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007280	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	TNRC6A	http://www.ncbi.nlm.nih.gov/gene/27327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007281	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	TPD52	http://www.ncbi.nlm.nih.gov/gene/7163	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007282	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	TRIM4	http://www.ncbi.nlm.nih.gov/gene/89122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007283	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	VEZT	http://www.ncbi.nlm.nih.gov/gene/55591	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007284	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	WASL	http://www.ncbi.nlm.nih.gov/gene/8976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007285	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	YWHAG	http://www.ncbi.nlm.nih.gov/gene/7532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007286	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	ZBTB38	http://www.ncbi.nlm.nih.gov/gene/253461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007287	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	ZNF160	http://www.ncbi.nlm.nih.gov/gene/90338	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007288	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	ZNF264	http://www.ncbi.nlm.nih.gov/gene/9422	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007289	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	ZNF281	http://www.ncbi.nlm.nih.gov/gene/23528	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007290	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	ZNF318	http://www.ncbi.nlm.nih.gov/gene/24149	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007291	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	ZNF507	http://www.ncbi.nlm.nih.gov/gene/22847	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007292	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	ZNF518B	http://www.ncbi.nlm.nih.gov/gene/85460	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007293	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	BC-3	-	Host	mRNA	ZNF780B	http://www.ncbi.nlm.nih.gov/gene/163131	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007294	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-5(miR-K12-5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	-	-	Host	Protein	RTA	http://www.ncbi.nlm.nih.gov/gene/116535	Downregulation	ChIP and KSHV genome array, Quantitative RT-PCR, MeDIP, Luciferase assay.	20071580	However, BAC36 miR consistently expressed elevated levels of viral lytic genes, including the immediate-early transcriptional activator Rta (ORF50). At least one KSHV microRNA (miR-K12-5) was capable of suppressing ORF50 mRNA, but poor seed sequence alignments suggest that these targets may be indirect. We conclude that KSHV miRNA targets multiple pathways to maintain the latent state of the KSHV genome, including repression of the viral immediate-early protein Rta and a cellular factor, Rbl2, that regulates global epigenetic reprogramming.
VHID00007295	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	-	-	Host	mRNA	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	-	19158788	THBS1 mRNA was downregulated in cells engineered to express KSHV miRNAs and also showed that THBS1 translation is inhibited by several KSHV miRNAs, in particular by miR-K12-6-3p, which shows miRNA seed complementarity to two sites in the THBS1 mRNA 3'UTR. .
VHID00007296	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BCBL1	-	Host	mRNA	Bach1		-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00007297	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BCBL1	-	Host	mRNA	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00007298	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K12-6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	-	-	Host	Protein	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00007299	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K12-6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	293 Cells	-	Host	Protein	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	Luciferase de-repression assay.	17500590	We performed luciferase de-repression assays by co-transfection of the THBS1 3'UTR reporter and 2'OMe RNAs specific to individual KSHV miRNAs. Our results demonstrate that THBS1 is targeted by multiple KSHV miRNAs; in particular, miR-K12-1, miR-K12-3-3p, miR-K12-6-3p, and miR-K12-11 lead to strong de-repression of the reporter.
VHID00007300	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K12-6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	Lymphocytes	-	Host	Protein	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	KSHV miR-K12-1, miR-K12-3-3p,  miR-K12-6-3p, and miR-K12-11 reduce the expression  of THBS1(thrombospondin 1) by interaction with the  THBS1 4' UTR.
VHID00007301	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	-	-	Host	Protein	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00007302	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	MARCH8		-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007303	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ABI1	http://www.ncbi.nlm.nih.gov/gene/10006	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007304	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ACYP2	http://www.ncbi.nlm.nih.gov/gene/98	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007305	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ADCY1	http://www.ncbi.nlm.nih.gov/gene/107	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007306	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ALG10B	http://www.ncbi.nlm.nih.gov/gene/144245	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007307	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	AMN1	http://www.ncbi.nlm.nih.gov/gene/196394	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007308	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	AP1G1	http://www.ncbi.nlm.nih.gov/gene/164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007309	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ARFGAP3	http://www.ncbi.nlm.nih.gov/gene/26286	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007310	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ARPC4	http://www.ncbi.nlm.nih.gov/gene/26140	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007311	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ASCC3	http://www.ncbi.nlm.nih.gov/gene/10973	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007312	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007313	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	BAZ2A	http://www.ncbi.nlm.nih.gov/gene/11176	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007314	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	BCL7A	http://www.ncbi.nlm.nih.gov/gene/605	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007315	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	BRWD1	http://www.ncbi.nlm.nih.gov/gene/54014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007316	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	BTG2	http://www.ncbi.nlm.nih.gov/gene/7832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007317	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	BTG3	http://www.ncbi.nlm.nih.gov/gene/10950	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007318	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	C11orf30	http://www.ncbi.nlm.nih.gov/gene/56946	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007319	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	C6orf130	http://www.ncbi.nlm.nih.gov/gene/221443	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007320	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	C9orf80	http://www.ncbi.nlm.nih.gov/gene/58493	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007321	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	CALM1	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007322	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	CALU	http://www.ncbi.nlm.nih.gov/gene/813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007323	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	CBLL1	http://www.ncbi.nlm.nih.gov/gene/79872	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007324	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	CCDC88A	http://www.ncbi.nlm.nih.gov/gene/55704	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007325	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	CCNJ	http://www.ncbi.nlm.nih.gov/gene/54619	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007326	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	CDC42SE1	http://www.ncbi.nlm.nih.gov/gene/56882	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007327	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	CDC73	http://www.ncbi.nlm.nih.gov/gene/79577	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007328	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	CGRRF1	http://www.ncbi.nlm.nih.gov/gene/10668	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007329	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	CLEC2D	http://www.ncbi.nlm.nih.gov/gene/29121	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007330	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	COPG	http://www.ncbi.nlm.nih.gov/gene/22820	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007331	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	CXorf15	http://www.ncbi.nlm.nih.gov/gene/55787	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007332	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	DCK	http://www.ncbi.nlm.nih.gov/gene/1633	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007333	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	DDX17	http://www.ncbi.nlm.nih.gov/gene/10521	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007334	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	DDX47	http://www.ncbi.nlm.nih.gov/gene/51202	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007335	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	DNAL1	http://www.ncbi.nlm.nih.gov/gene/83544	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007336	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	DZIP3	http://www.ncbi.nlm.nih.gov/gene/9666	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007337	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	E2F7	http://www.ncbi.nlm.nih.gov/gene/144455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007338	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	EFHD2	http://www.ncbi.nlm.nih.gov/gene/79180	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007339	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	EIF1AD	http://www.ncbi.nlm.nih.gov/gene/84285	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007340	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	FAM107B	http://www.ncbi.nlm.nih.gov/gene/83641	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007341	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	FAM171B	http://www.ncbi.nlm.nih.gov/gene/165215	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007342	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	FAM91A1	http://www.ncbi.nlm.nih.gov/gene/157769	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007343	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	FAM98B	http://www.ncbi.nlm.nih.gov/gene/283742	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007344	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	FNIP1	http://www.ncbi.nlm.nih.gov/gene/96459	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007345	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	FRS2	http://www.ncbi.nlm.nih.gov/gene/10818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007346	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	GAPDH	http://www.ncbi.nlm.nih.gov/gene/729403	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007347	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	GGPS1	http://www.ncbi.nlm.nih.gov/gene/9453	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007348	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	GPN3	http://www.ncbi.nlm.nih.gov/gene/51184	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007349	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	GSTCD	http://www.ncbi.nlm.nih.gov/gene/79807	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007350	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	GTPBP10	http://www.ncbi.nlm.nih.gov/gene/85865	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007351	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	HMG20A	http://www.ncbi.nlm.nih.gov/gene/10363	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007352	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	IKZF4	http://www.ncbi.nlm.nih.gov/gene/64375	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007353	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	IMPA1	http://www.ncbi.nlm.nih.gov/gene/3612	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007354	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	INO80D	http://www.ncbi.nlm.nih.gov/gene/54891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007355	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	INTS6	http://www.ncbi.nlm.nih.gov/gene/26512	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007356	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	JAK1	http://www.ncbi.nlm.nih.gov/gene/3716	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007357	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	JMJD1C	http://www.ncbi.nlm.nih.gov/gene/221037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007358	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	KDM5C	http://www.ncbi.nlm.nih.gov/gene/8242	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007359	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	KIAA0240	http://www.ncbi.nlm.nih.gov/gene/23506	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007360	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	KIAA0317	http://www.ncbi.nlm.nih.gov/gene/9870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007361	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	KLHL11	http://www.ncbi.nlm.nih.gov/gene/55175	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007362	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	KLHL14	http://www.ncbi.nlm.nih.gov/gene/57565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007363	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	LANCL1	http://www.ncbi.nlm.nih.gov/gene/10314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007364	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	LDLRAP1	http://www.ncbi.nlm.nih.gov/gene/26119	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007365	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	LMBR1	http://www.ncbi.nlm.nih.gov/gene/64327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007366	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	LRRC57	http://www.ncbi.nlm.nih.gov/gene/255252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007367	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	LYSMD3	http://www.ncbi.nlm.nih.gov/gene/116068	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007368	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	M6PR	http://www.ncbi.nlm.nih.gov/gene/4074	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007369	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	MAP4K4	http://www.ncbi.nlm.nih.gov/gene/9448	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007370	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	MCM5	http://www.ncbi.nlm.nih.gov/gene/4174	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007371	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	MDM2	http://www.ncbi.nlm.nih.gov/gene/4193	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007372	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	MDM4	http://www.ncbi.nlm.nih.gov/gene/4194	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007373	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	MED21	http://www.ncbi.nlm.nih.gov/gene/9412	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007374	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	MEF2A	http://www.ncbi.nlm.nih.gov/gene/4205	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007375	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	MKLN1	http://www.ncbi.nlm.nih.gov/gene/4289	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007376	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	MLEC	http://www.ncbi.nlm.nih.gov/gene/9761	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007377	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	MMGT1	http://www.ncbi.nlm.nih.gov/gene/93380	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007378	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	MTMR12	http://www.ncbi.nlm.nih.gov/gene/54545	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007379	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	MTMR9	http://www.ncbi.nlm.nih.gov/gene/66036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007380	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	MTX3	http://www.ncbi.nlm.nih.gov/gene/345778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007381	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	MXD1	http://www.ncbi.nlm.nih.gov/gene/4084	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007382	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	MXI1	http://www.ncbi.nlm.nih.gov/gene/4601	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007383	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	NHEDC2	http://www.ncbi.nlm.nih.gov/gene/133308	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007384	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	NUDT1	http://www.ncbi.nlm.nih.gov/gene/4521	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007385	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	NUDT19	http://www.ncbi.nlm.nih.gov/gene/390916	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007386	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	NUDT21	http://www.ncbi.nlm.nih.gov/gene/11051	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007387	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	NUPL1	http://www.ncbi.nlm.nih.gov/gene/9818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007388	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	OBFC2A	http://www.ncbi.nlm.nih.gov/gene/64859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007389	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	PER2	http://www.ncbi.nlm.nih.gov/gene/8864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007390	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	PHC3	http://www.ncbi.nlm.nih.gov/gene/80012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007391	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	PHF6	http://www.ncbi.nlm.nih.gov/gene/84295	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007392	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	PITPNB	http://www.ncbi.nlm.nih.gov/gene/23760	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007393	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	PM20D2	http://www.ncbi.nlm.nih.gov/gene/135293	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007394	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	POLE3	http://www.ncbi.nlm.nih.gov/gene/54107	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007395	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	POLR1B	http://www.ncbi.nlm.nih.gov/gene/84172	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007396	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007397	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	PPP1R2	http://www.ncbi.nlm.nih.gov/gene/5504	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007398	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	PRDM15	http://www.ncbi.nlm.nih.gov/gene/63977	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007399	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	PRDM4	http://www.ncbi.nlm.nih.gov/gene/11108	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007400	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	PTCD3	http://www.ncbi.nlm.nih.gov/gene/55037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007401	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	PTPRC	http://www.ncbi.nlm.nih.gov/gene/5788	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007402	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	RAB22A	http://www.ncbi.nlm.nih.gov/gene/57403	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007403	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	RABL3	http://www.ncbi.nlm.nih.gov/gene/285282	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007404	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	RAD23B	http://www.ncbi.nlm.nih.gov/gene/5887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007405	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	RBM27	http://www.ncbi.nlm.nih.gov/gene/54439	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007406	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	RBMXL1	http://www.ncbi.nlm.nih.gov/gene/494115	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007407	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	RFWD2	http://www.ncbi.nlm.nih.gov/gene/64326	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007408	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	RFX7	http://www.ncbi.nlm.nih.gov/gene/64864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007409	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	RGL1	http://www.ncbi.nlm.nih.gov/gene/23179	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007410	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	RNF125	http://www.ncbi.nlm.nih.gov/gene/54941	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007411	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	RPL23	http://www.ncbi.nlm.nih.gov/gene/9349	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007412	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	RSBN1	http://www.ncbi.nlm.nih.gov/gene/54665	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007413	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	RUFY2	http://www.ncbi.nlm.nih.gov/gene/55680	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007414	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SAMD8	http://www.ncbi.nlm.nih.gov/gene/142891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007415	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SEL1L	http://www.ncbi.nlm.nih.gov/gene/6400	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007416	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SENP1	http://www.ncbi.nlm.nih.gov/gene/29843	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007417	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SFRS7	http://www.ncbi.nlm.nih.gov/gene/6432	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007418	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SGTB	http://www.ncbi.nlm.nih.gov/gene/54557	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007419	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SH3GL2	http://www.ncbi.nlm.nih.gov/gene/6456	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007420	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SIKE1	http://www.ncbi.nlm.nih.gov/gene/80143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007421	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SIRT2	http://www.ncbi.nlm.nih.gov/gene/22933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007422	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SLC23A2	http://www.ncbi.nlm.nih.gov/gene/9962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007423	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SMURF2	http://www.ncbi.nlm.nih.gov/gene/64750	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007424	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SNX16	http://www.ncbi.nlm.nih.gov/gene/64089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007425	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SNX2	http://www.ncbi.nlm.nih.gov/gene/6643	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007426	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SOCS4	http://www.ncbi.nlm.nih.gov/gene/122809	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007427	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SPTLC2	http://www.ncbi.nlm.nih.gov/gene/9517	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007428	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SQSTM1	http://www.ncbi.nlm.nih.gov/gene/8878	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007429	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SRP54	http://www.ncbi.nlm.nih.gov/gene/650638	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007430	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SSX2IP	http://www.ncbi.nlm.nih.gov/gene/117178	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007431	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	STAG2	http://www.ncbi.nlm.nih.gov/gene/10735	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007432	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	STRN	http://www.ncbi.nlm.nih.gov/gene/6801	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007433	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SWAP70	http://www.ncbi.nlm.nih.gov/gene/23075	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007434	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	SYNCRIP	http://www.ncbi.nlm.nih.gov/gene/10492	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007435	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	TATDN3	http://www.ncbi.nlm.nih.gov/gene/128387	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007436	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	TCF20	http://www.ncbi.nlm.nih.gov/gene/6942	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007437	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	TERF1	http://www.ncbi.nlm.nih.gov/gene/646316	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007438	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	TET3	http://www.ncbi.nlm.nih.gov/gene/200424	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007439	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	TFDP1	http://www.ncbi.nlm.nih.gov/gene/7027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007440	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	TNRC6B	http://www.ncbi.nlm.nih.gov/gene/23112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007441	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	TOP2A	http://www.ncbi.nlm.nih.gov/gene/7153	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007442	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	TRIM14	http://www.ncbi.nlm.nih.gov/gene/9830	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007443	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	TSPYL5	http://www.ncbi.nlm.nih.gov/gene/85453	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007444	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	UBE2F	http://www.ncbi.nlm.nih.gov/gene/140739	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007445	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	UBE2V1	http://www.ncbi.nlm.nih.gov/gene/387522	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007446	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	UBP1	http://www.ncbi.nlm.nih.gov/gene/7342	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007447	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	UBXN7	http://www.ncbi.nlm.nih.gov/gene/26043	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007448	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	UHMK1	http://www.ncbi.nlm.nih.gov/gene/127933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007449	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	USP22	http://www.ncbi.nlm.nih.gov/gene/23326	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007450	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	VEZF1	http://www.ncbi.nlm.nih.gov/gene/7716	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007451	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	VPS37C	http://www.ncbi.nlm.nih.gov/gene/55048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007452	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	WDR26	http://www.ncbi.nlm.nih.gov/gene/80232	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007453	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	WDR33	http://www.ncbi.nlm.nih.gov/gene/55339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007454	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	WDR42A	http://www.ncbi.nlm.nih.gov/gene/50717 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007455	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	WDR55	http://www.ncbi.nlm.nih.gov/gene/54853	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007456	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	WDR82	http://www.ncbi.nlm.nih.gov/gene/80335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007457	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	XPNPEP3	http://www.ncbi.nlm.nih.gov/gene/63929	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007458	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	YOD1	http://www.ncbi.nlm.nih.gov/gene/55432	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007459	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ZBTB38	http://www.ncbi.nlm.nih.gov/gene/253461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007460	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ZC3H4	http://www.ncbi.nlm.nih.gov/gene/23211	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007461	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ZKSCAN5	http://www.ncbi.nlm.nih.gov/gene/23660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007462	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ZMAT3	http://www.ncbi.nlm.nih.gov/gene/64393	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007463	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ZMIZ1	http://www.ncbi.nlm.nih.gov/gene/57178	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007464	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ZNF134	http://www.ncbi.nlm.nih.gov/gene/7693	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007465	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ZNF22	http://www.ncbi.nlm.nih.gov/gene/7570	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007466	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ZNF346	http://www.ncbi.nlm.nih.gov/gene/23567	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007467	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ZNF445	http://www.ncbi.nlm.nih.gov/gene/353274	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007468	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ZNF451	http://www.ncbi.nlm.nih.gov/gene/26036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007469	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ZNF485	http://www.ncbi.nlm.nih.gov/gene/220992	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007470	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ZNF525	http://www.ncbi.nlm.nih.gov/gene/170958	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007471	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ZNF609	http://www.ncbi.nlm.nih.gov/gene/23060	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007472	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ZNF701	http://www.ncbi.nlm.nih.gov/gene/55762	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007473	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ZNF776	http://www.ncbi.nlm.nih.gov/gene/284309	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007474	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-1	-	Host	mRNA	ZNF800	http://www.ncbi.nlm.nih.gov/gene/168850	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007475	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ABI1	http://www.ncbi.nlm.nih.gov/gene/10006	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007476	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ACSS2	http://www.ncbi.nlm.nih.gov/gene/55902	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007477	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ALG10B	http://www.ncbi.nlm.nih.gov/gene/144245	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007478	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	AMN1	http://www.ncbi.nlm.nih.gov/gene/196394	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007479	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ANAPC13	http://www.ncbi.nlm.nih.gov/gene/25847	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007480	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ANAPC7	http://www.ncbi.nlm.nih.gov/gene/51434	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007481	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ANKIB1	http://www.ncbi.nlm.nih.gov/gene/54467	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007482	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ANKRD57	http://www.ncbi.nlm.nih.gov/gene/65124	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007483	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ANO6	http://www.ncbi.nlm.nih.gov/gene/196527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007484	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	AP1G1	http://www.ncbi.nlm.nih.gov/gene/164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007485	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	AP1S3	http://www.ncbi.nlm.nih.gov/gene/130340	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007486	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	AP2A1	http://www.ncbi.nlm.nih.gov/gene/160	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007487	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	AP3D1	http://www.ncbi.nlm.nih.gov/gene/8943	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007488	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ARHGAP4	http://www.ncbi.nlm.nih.gov/gene/393	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007489	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ARPC4	http://www.ncbi.nlm.nih.gov/gene/26140	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007490	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ASB7	http://www.ncbi.nlm.nih.gov/gene/140460	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007491	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ASZ1	http://www.ncbi.nlm.nih.gov/gene/136991	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007492	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ATXN1L	http://www.ncbi.nlm.nih.gov/gene/342371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007493	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007494	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	BACH2	http://www.ncbi.nlm.nih.gov/gene/60468	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007495	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	BAZ2A	http://www.ncbi.nlm.nih.gov/gene/11176	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007496	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	BCL7A	http://www.ncbi.nlm.nih.gov/gene/605	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007497	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	C10orf137	http://www.ncbi.nlm.nih.gov/gene/26098	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007498	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	C11orf30	http://www.ncbi.nlm.nih.gov/gene/56946	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007499	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	C2orf29	http://www.ncbi.nlm.nih.gov/gene/55571	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007500	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	C6orf130	http://www.ncbi.nlm.nih.gov/gene/221443	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007501	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	C9orf80	http://www.ncbi.nlm.nih.gov/gene/58493	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007502	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CALM1	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007503	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CALU	http://www.ncbi.nlm.nih.gov/gene/813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007504	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CASD1	http://www.ncbi.nlm.nih.gov/gene/64921	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007505	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CASP2	http://www.ncbi.nlm.nih.gov/gene/835	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007506	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CCDC88A	http://www.ncbi.nlm.nih.gov/gene/55704	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007507	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CCNJ	http://www.ncbi.nlm.nih.gov/gene/54619	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007508	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007509	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CD164	http://www.ncbi.nlm.nih.gov/gene/8763	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007510	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CDC25A	http://www.ncbi.nlm.nih.gov/gene/993	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007511	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CDC73	http://www.ncbi.nlm.nih.gov/gene/79577	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007512	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CDCA7L	http://www.ncbi.nlm.nih.gov/gene/55536	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007513	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CENPI	http://www.ncbi.nlm.nih.gov/gene/2491	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007514	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CGRRF1	http://www.ncbi.nlm.nih.gov/gene/10668	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007515	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CLCN3	http://www.ncbi.nlm.nih.gov/gene/1182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007516	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CLDN11	http://www.ncbi.nlm.nih.gov/gene/5010	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007517	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CLEC2D	http://www.ncbi.nlm.nih.gov/gene/29121	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007518	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	COPG	http://www.ncbi.nlm.nih.gov/gene/22820	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007519	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	COX7B2	http://www.ncbi.nlm.nih.gov/gene/170712	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007520	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	CPD	http://www.ncbi.nlm.nih.gov/gene/1362	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007521	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	DARS2	http://www.ncbi.nlm.nih.gov/gene/55157	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007522	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	DCK	http://www.ncbi.nlm.nih.gov/gene/1633	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007523	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	DDX17	http://www.ncbi.nlm.nih.gov/gene/10521	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007524	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	DDX6	http://www.ncbi.nlm.nih.gov/gene/1656	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007525	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	DICER1	http://www.ncbi.nlm.nih.gov/gene/23405	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007526	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	DIP2B	http://www.ncbi.nlm.nih.gov/gene/57609	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007527	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	DVL3	http://www.ncbi.nlm.nih.gov/gene/1857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007528	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	EFHD2	http://www.ncbi.nlm.nih.gov/gene/79180	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007529	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	EIF1AD	http://www.ncbi.nlm.nih.gov/gene/84285	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007530	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	EIF4E3	http://www.ncbi.nlm.nih.gov/gene/317649	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007531	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	EIF4G2	http://www.ncbi.nlm.nih.gov/gene/1982	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007532	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	FAHD2A	http://www.ncbi.nlm.nih.gov/gene/51011	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007533	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	FAM107B	http://www.ncbi.nlm.nih.gov/gene/83641	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007534	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	FAM171B	http://www.ncbi.nlm.nih.gov/gene/165215	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007535	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	FAM178A	http://www.ncbi.nlm.nih.gov/gene/55719	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007536	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	FAM91A1	http://www.ncbi.nlm.nih.gov/gene/157769	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007537	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	FNIP1	http://www.ncbi.nlm.nih.gov/gene/96459	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007538	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	GAPVD1	http://www.ncbi.nlm.nih.gov/gene/26130	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007539	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	GCNT4	http://www.ncbi.nlm.nih.gov/gene/51301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007540	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	GGPS1	http://www.ncbi.nlm.nih.gov/gene/9453	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007541	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	GLE1	http://www.ncbi.nlm.nih.gov/gene/2733	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007542	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	GPN3	http://www.ncbi.nlm.nih.gov/gene/51184	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007543	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	GRK7	http://www.ncbi.nlm.nih.gov/gene/131890	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007544	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	GRSF1	http://www.ncbi.nlm.nih.gov/gene/2926	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007545	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	GSK3B	http://www.ncbi.nlm.nih.gov/gene/2932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007546	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	GSTCD	http://www.ncbi.nlm.nih.gov/gene/79807	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007547	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	GTPBP10	http://www.ncbi.nlm.nih.gov/gene/85865	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007548	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	HDAC7	http://www.ncbi.nlm.nih.gov/gene/51564	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007549	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	HSPA1B	http://www.ncbi.nlm.nih.gov/gene/3303	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007550	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	IKZF4	http://www.ncbi.nlm.nih.gov/gene/64375	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007551	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	IMPAD1	http://www.ncbi.nlm.nih.gov/gene/54928	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007552	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	INTS6	http://www.ncbi.nlm.nih.gov/gene/26512	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007553	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	IPPK	http://www.ncbi.nlm.nih.gov/gene/64768	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007554	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ITGAL	http://www.ncbi.nlm.nih.gov/gene/3683	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007555	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	JMJD1C	http://www.ncbi.nlm.nih.gov/gene/221037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007556	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	KBTBD2	http://www.ncbi.nlm.nih.gov/gene/25948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007557	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	KDELC2	http://www.ncbi.nlm.nih.gov/gene/143888	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007558	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	KDM5C	http://www.ncbi.nlm.nih.gov/gene/8242	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007559	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	KIAA0240	http://www.ncbi.nlm.nih.gov/gene/23506	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007560	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	KIAA0317	http://www.ncbi.nlm.nih.gov/gene/9870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007561	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	KLHL11	http://www.ncbi.nlm.nih.gov/gene/55175	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007562	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	KLHL15	http://www.ncbi.nlm.nih.gov/gene/80311	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007563	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	KPNA1	http://www.ncbi.nlm.nih.gov/gene/3836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007564	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	KSR1	http://www.ncbi.nlm.nih.gov/gene/8844	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007565	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	LANCL1	http://www.ncbi.nlm.nih.gov/gene/10314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007566	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	LARGE	http://www.ncbi.nlm.nih.gov/gene/9215	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007567	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	LARS	http://www.ncbi.nlm.nih.gov/gene/51520	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007568	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	LASP1	http://www.ncbi.nlm.nih.gov/gene/3927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007569	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	LATS2	http://www.ncbi.nlm.nih.gov/gene/26524	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007570	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	LIN7C	http://www.ncbi.nlm.nih.gov/gene/55327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007571	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	LPP	http://www.ncbi.nlm.nih.gov/gene/4026	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007572	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	LRRC57	http://www.ncbi.nlm.nih.gov/gene/255252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007573	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	M6PR	http://www.ncbi.nlm.nih.gov/gene/4074	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007574	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	MAP4	http://www.ncbi.nlm.nih.gov/gene/4134	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007575	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	MAPK8	http://www.ncbi.nlm.nih.gov/gene/5599	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007576	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	MCM5	http://www.ncbi.nlm.nih.gov/gene/4174	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007577	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	MDM4	http://www.ncbi.nlm.nih.gov/gene/4194	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007578	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	MED21	http://www.ncbi.nlm.nih.gov/gene/9412	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007579	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	MFN2	http://www.ncbi.nlm.nih.gov/gene/9927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007580	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	MINK1	http://www.ncbi.nlm.nih.gov/gene/50488	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007581	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	MLEC	http://www.ncbi.nlm.nih.gov/gene/9761	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007582	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	MOBKL2A	http://www.ncbi.nlm.nih.gov/gene/126308	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007583	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	MTMR12	http://www.ncbi.nlm.nih.gov/gene/54545	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007584	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	MTMR4	http://www.ncbi.nlm.nih.gov/gene/9110	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007585	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	MXD1	http://www.ncbi.nlm.nih.gov/gene/4084	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007586	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	MXI1	http://www.ncbi.nlm.nih.gov/gene/4601	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007587	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	NAT15	http://www.ncbi.nlm.nih.gov/gene/79903	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007588	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	NR2C2	http://www.ncbi.nlm.nih.gov/gene/7182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007589	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	NUDT19	http://www.ncbi.nlm.nih.gov/gene/390916	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007590	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	NUDT21	http://www.ncbi.nlm.nih.gov/gene/11051	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007591	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	NUPL1	http://www.ncbi.nlm.nih.gov/gene/9818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007592	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	OBFC2A	http://www.ncbi.nlm.nih.gov/gene/64859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007593	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	PCF11	http://www.ncbi.nlm.nih.gov/gene/51585	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007594	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	PCMT1	http://www.ncbi.nlm.nih.gov/gene/5110	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007595	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	PDE12	http://www.ncbi.nlm.nih.gov/gene/201626	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007596	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	PDLIM5	http://www.ncbi.nlm.nih.gov/gene/10611	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007597	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	PHF6	http://www.ncbi.nlm.nih.gov/gene/84295	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007598	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	PHLPP2	http://www.ncbi.nlm.nih.gov/gene/23035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007599	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	PITPNB	http://www.ncbi.nlm.nih.gov/gene/23760	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007600	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	PM20D2	http://www.ncbi.nlm.nih.gov/gene/135293	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007601	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	POLE3	http://www.ncbi.nlm.nih.gov/gene/54107	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007602	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007603	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	PRDM4	http://www.ncbi.nlm.nih.gov/gene/11108	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007604	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	PRDM5	http://www.ncbi.nlm.nih.gov/gene/11107	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007605	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	PSMB5	http://www.ncbi.nlm.nih.gov/gene/5693	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007606	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	PTCD3	http://www.ncbi.nlm.nih.gov/gene/55037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007607	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	PTPLAD1	http://www.ncbi.nlm.nih.gov/gene/51495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007608	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	PTPRC	http://www.ncbi.nlm.nih.gov/gene/5788	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007609	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	PURA	http://www.ncbi.nlm.nih.gov/gene/5813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007610	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	RAB12	http://www.ncbi.nlm.nih.gov/gene/201475	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007611	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	RAB22A	http://www.ncbi.nlm.nih.gov/gene/57403	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007612	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	RAB23	http://www.ncbi.nlm.nih.gov/gene/51715	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007613	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	RABL3	http://www.ncbi.nlm.nih.gov/gene/285282	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007614	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	RBM16	http://www.ncbi.nlm.nih.gov/gene/22828	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007615	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	RBMXL1	http://www.ncbi.nlm.nih.gov/gene/494115	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007616	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	RC3H2	http://www.ncbi.nlm.nih.gov/gene/54542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007617	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	REV1	http://www.ncbi.nlm.nih.gov/gene/51455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007618	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	REV3L	http://www.ncbi.nlm.nih.gov/gene/5980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007619	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	RGL1	http://www.ncbi.nlm.nih.gov/gene/23179	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007620	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	RNF125	http://www.ncbi.nlm.nih.gov/gene/54941	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007621	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	RNF157	http://www.ncbi.nlm.nih.gov/gene/114804	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007622	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	RNF217	http://www.ncbi.nlm.nih.gov/gene/154214	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007623	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007624	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	RUFY2	http://www.ncbi.nlm.nih.gov/gene/55680	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007625	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SAMD8	http://www.ncbi.nlm.nih.gov/gene/142891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007626	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SCOC	http://www.ncbi.nlm.nih.gov/gene/60592	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007627	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SEC14L1	http://www.ncbi.nlm.nih.gov/gene/6397	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007628	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SEL1L	http://www.ncbi.nlm.nih.gov/gene/6400	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007629	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SENP2	http://www.ncbi.nlm.nih.gov/gene/59343	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007630	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SETD1B	http://www.ncbi.nlm.nih.gov/gene/23067	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007631	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SGTB	http://www.ncbi.nlm.nih.gov/gene/54557	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007632	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SH3BGRL2	http://www.ncbi.nlm.nih.gov/gene/83699	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007633	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SH3GL2	http://www.ncbi.nlm.nih.gov/gene/6456	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007634	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SLC41A2	http://www.ncbi.nlm.nih.gov/gene/84102	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007635	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SLC9A8	http://www.ncbi.nlm.nih.gov/gene/23315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007636	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SMAD3	http://www.ncbi.nlm.nih.gov/gene/4088	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007637	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SMC1A	http://www.ncbi.nlm.nih.gov/gene/8243	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007638	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SMC2	http://www.ncbi.nlm.nih.gov/gene/10592	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007639	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SNX16	http://www.ncbi.nlm.nih.gov/gene/64089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007640	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SNX2	http://www.ncbi.nlm.nih.gov/gene/6643	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007641	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SOD2	http://www.ncbi.nlm.nih.gov/gene/6648	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007642	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SPTLC2	http://www.ncbi.nlm.nih.gov/gene/9517	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007643	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SQSTM1	http://www.ncbi.nlm.nih.gov/gene/8878	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007644	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SRP54	http://www.ncbi.nlm.nih.gov/gene/650638	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007645	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SSU72	http://www.ncbi.nlm.nih.gov/gene/29101	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007646	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	STXBP3	http://www.ncbi.nlm.nih.gov/gene/6814	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007647	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SWAP70	http://www.ncbi.nlm.nih.gov/gene/23075	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007648	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	SYNCRIP	http://www.ncbi.nlm.nih.gov/gene/10492	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007649	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	TAF6	http://www.ncbi.nlm.nih.gov/gene/6878	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007650	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	TATDN3	http://www.ncbi.nlm.nih.gov/gene/128387	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007651	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	TERF1	http://www.ncbi.nlm.nih.gov/gene/646316	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007652	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	TET3	http://www.ncbi.nlm.nih.gov/gene/200424	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007653	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	TFDP1	http://www.ncbi.nlm.nih.gov/gene/7027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007654	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	THAP6	http://www.ncbi.nlm.nih.gov/gene/152815	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007655	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	THOC5	http://www.ncbi.nlm.nih.gov/gene/8563	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007656	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	TLN1	http://www.ncbi.nlm.nih.gov/gene/7094	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007657	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	TMEM184B	http://www.ncbi.nlm.nih.gov/gene/25829	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007658	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	TMEM20	http://www.ncbi.nlm.nih.gov/gene/159371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007659	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	TNRC6B	http://www.ncbi.nlm.nih.gov/gene/23112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007660	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	TOP2A	http://www.ncbi.nlm.nih.gov/gene/7153	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007661	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	TPD52L1	http://www.ncbi.nlm.nih.gov/gene/7164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007662	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	TPX2	http://www.ncbi.nlm.nih.gov/gene/22974	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007663	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	TRIM14	http://www.ncbi.nlm.nih.gov/gene/9830	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007664	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	TRIM23	http://www.ncbi.nlm.nih.gov/gene/373	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007665	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	TSPYL5	http://www.ncbi.nlm.nih.gov/gene/85453	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007666	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	UBE2F	http://www.ncbi.nlm.nih.gov/gene/140739	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007667	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	UBE2G2	http://www.ncbi.nlm.nih.gov/gene/7327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007668	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	UBE2V1	http://www.ncbi.nlm.nih.gov/gene/387522	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007669	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	UBE4A	http://www.ncbi.nlm.nih.gov/gene/9354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007670	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	UCP2	http://www.ncbi.nlm.nih.gov/gene/7351	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007671	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	USP22	http://www.ncbi.nlm.nih.gov/gene/23326	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007672	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	VEZF1	http://www.ncbi.nlm.nih.gov/gene/7716	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007673	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	VPS25	http://www.ncbi.nlm.nih.gov/gene/84313	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007674	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	VPS37C	http://www.ncbi.nlm.nih.gov/gene/55048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007675	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	VTA1	http://www.ncbi.nlm.nih.gov/gene/51534	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007676	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	WDR42A	http://www.ncbi.nlm.nih.gov/gene/50717 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007677	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	WDR82	http://www.ncbi.nlm.nih.gov/gene/80335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007678	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	WIBG	http://www.ncbi.nlm.nih.gov/gene/84305	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007679	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	WWP2	http://www.ncbi.nlm.nih.gov/gene/11060	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007680	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	XPO1	http://www.ncbi.nlm.nih.gov/gene/7514	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007681	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ZBTB38	http://www.ncbi.nlm.nih.gov/gene/253461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007682	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ZKSCAN5	http://www.ncbi.nlm.nih.gov/gene/23660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007683	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ZMAT3	http://www.ncbi.nlm.nih.gov/gene/64393	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007684	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ZNF134	http://www.ncbi.nlm.nih.gov/gene/7693	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007685	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ZNF142	http://www.ncbi.nlm.nih.gov/gene/7701	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007686	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ZNF252	http://www.ncbi.nlm.nih.gov/gene/286101	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007687	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ZNF346	http://www.ncbi.nlm.nih.gov/gene/23567	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007688	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ZNF445	http://www.ncbi.nlm.nih.gov/gene/353274	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007689	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ZNF485	http://www.ncbi.nlm.nih.gov/gene/220992	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007690	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ZNF507	http://www.ncbi.nlm.nih.gov/gene/22847	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007691	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ZNF525	http://www.ncbi.nlm.nih.gov/gene/170958	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007692	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ZNF800	http://www.ncbi.nlm.nih.gov/gene/168850	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007693	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ZNF90	http://www.ncbi.nlm.nih.gov/gene/7643	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007694	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	BC-3	-	Host	mRNA	ZWINT	http://www.ncbi.nlm.nih.gov/gene/11130	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007695	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K12-6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	-	-	Host	Protein	MAF	http://www.ncbi.nlm.nih.gov/gene/4094	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00007696	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K12-6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	-	-	Host	Protein	MAF	http://www.ncbi.nlm.nih.gov/gene/4094	Downregulation	qPCR and qRT-PCR, Western blotting, Luciferase reporter assays.	20080955	Site-directed mutagenesis of KSHV miRNA predicted target sites in the MAF 3'UTR abolished silencing, confirming that miR-K12-1, miR-K12-6-5p, and miR-K12-11 regulate MAF by interacting with the 3'UTR.
VHID00007697	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K12-6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	-	-	Host	Protein	MAF1	http://www.ncbi.nlm.nih.gov/gene/84232	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00007698	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K12-6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	-	-	Host	mRNA	MAF	http://www.ncbi.nlm.nih.gov/gene/4094	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00007699	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	AHNAK	http://www.ncbi.nlm.nih.gov/gene/79026	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007700	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	AKAP13	http://www.ncbi.nlm.nih.gov/gene/11214	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007701	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	ANAPC13	http://www.ncbi.nlm.nih.gov/gene/25847	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007702	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	ANKIB1	http://www.ncbi.nlm.nih.gov/gene/54467	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007703	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	ANKRD12	http://www.ncbi.nlm.nih.gov/gene/23253	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007704	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	AP1S3	http://www.ncbi.nlm.nih.gov/gene/130340	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007705	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	AP3D1	http://www.ncbi.nlm.nih.gov/gene/8943	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007706	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	ARFGAP2	http://www.ncbi.nlm.nih.gov/gene/84364	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007707	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	ATF7	http://www.ncbi.nlm.nih.gov/gene/11016	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007708	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	ATP6V1C1	http://www.ncbi.nlm.nih.gov/gene/528	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007709	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	BAZ2A	http://www.ncbi.nlm.nih.gov/gene/11176	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007710	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	BOLA3	http://www.ncbi.nlm.nih.gov/gene/388962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007711	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	BTG2	http://www.ncbi.nlm.nih.gov/gene/7832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007712	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	C12orf30	http://www.ncbi.nlm.nih.gov/gene/80018 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007713	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	C13orf23	http://www.ncbi.nlm.nih.gov/gene/80209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007714	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	C5orf51	http://www.ncbi.nlm.nih.gov/gene/285636	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007715	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	C6orf204	http://www.ncbi.nlm.nih.gov/gene/387119	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007716	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	C7orf58	http://www.ncbi.nlm.nih.gov/gene/79974	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007717	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	CALM1	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007718	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	CALU	http://www.ncbi.nlm.nih.gov/gene/813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007719	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	CAMKK2	http://www.ncbi.nlm.nih.gov/gene/10645	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007720	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	CCDC88C	http://www.ncbi.nlm.nih.gov/gene/440193	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007721	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	CD164	http://www.ncbi.nlm.nih.gov/gene/8763	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007722	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	CD48	http://www.ncbi.nlm.nih.gov/gene/962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007723	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	CDC25A	http://www.ncbi.nlm.nih.gov/gene/993	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007724	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	CDK6	http://www.ncbi.nlm.nih.gov/gene/1021	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007725	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	CDKN1A	http://www.ncbi.nlm.nih.gov/gene/1026	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007726	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	CLASP2	http://www.ncbi.nlm.nih.gov/gene/23122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007727	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	CLCN3	http://www.ncbi.nlm.nih.gov/gene/1182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007728	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	COL4A3BP	http://www.ncbi.nlm.nih.gov/gene/10087	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007729	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	COMMD1	http://www.ncbi.nlm.nih.gov/gene/150684	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007730	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	COPS7A	http://www.ncbi.nlm.nih.gov/gene/50813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007731	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	CPD	http://www.ncbi.nlm.nih.gov/gene/1362	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007732	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	CPEB4	http://www.ncbi.nlm.nih.gov/gene/80315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007733	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	DENR	http://www.ncbi.nlm.nih.gov/gene/8562	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007734	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	DICER1	http://www.ncbi.nlm.nih.gov/gene/23405	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007735	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	DVL3	http://www.ncbi.nlm.nih.gov/gene/1857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007736	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	ELL	http://www.ncbi.nlm.nih.gov/gene/8178	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007737	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	EXOC5	http://www.ncbi.nlm.nih.gov/gene/10640	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007738	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	EXOSC1	http://www.ncbi.nlm.nih.gov/gene/51013	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007739	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	FAM171B	http://www.ncbi.nlm.nih.gov/gene/165215	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007740	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	FAM178A	http://www.ncbi.nlm.nih.gov/gene/55719	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007741	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	HSPA1B	http://www.ncbi.nlm.nih.gov/gene/3303	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007742	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	IPPK	http://www.ncbi.nlm.nih.gov/gene/64768	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007743	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	IRF4	http://www.ncbi.nlm.nih.gov/gene/3662	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007744	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	IRS1	http://www.ncbi.nlm.nih.gov/gene/3667	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007745	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	ITFG3	http://www.ncbi.nlm.nih.gov/gene/83986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007746	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	ITPR1	http://www.ncbi.nlm.nih.gov/gene/3708	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007747	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	KBTBD2	http://www.ncbi.nlm.nih.gov/gene/25948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007748	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	KIAA0802	http://www.ncbi.nlm.nih.gov/gene/23255	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007749	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	KLHL15	http://www.ncbi.nlm.nih.gov/gene/80311	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007750	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	KLHL18	http://www.ncbi.nlm.nih.gov/gene/23276	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007751	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	LATS2	http://www.ncbi.nlm.nih.gov/gene/26524	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007752	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	LCORL	http://www.ncbi.nlm.nih.gov/gene/254251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007753	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	LIMS1	http://www.ncbi.nlm.nih.gov/gene/3987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007754	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	LIN28B	http://www.ncbi.nlm.nih.gov/gene/389421	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007755	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	LIN7C	http://www.ncbi.nlm.nih.gov/gene/55327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007756	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	MAP4	http://www.ncbi.nlm.nih.gov/gene/4134	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007757	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	MAPK8	http://www.ncbi.nlm.nih.gov/gene/5599	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007758	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	MAPKAPK2	http://www.ncbi.nlm.nih.gov/gene/9261	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007759	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	MED1	http://www.ncbi.nlm.nih.gov/gene/5469	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007760	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	MFN2	http://www.ncbi.nlm.nih.gov/gene/9927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007761	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	MINK1	http://www.ncbi.nlm.nih.gov/gene/50488	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007762	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	MOGS	http://www.ncbi.nlm.nih.gov/gene/7841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007763	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	MTMR4	http://www.ncbi.nlm.nih.gov/gene/9110	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007764	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	NAT15	http://www.ncbi.nlm.nih.gov/gene/79903	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007765	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	NPTN	http://www.ncbi.nlm.nih.gov/gene/27020	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007766	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	NR2C2	http://www.ncbi.nlm.nih.gov/gene/7182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007767	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	NSD1	http://www.ncbi.nlm.nih.gov/gene/64324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007768	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	NUCKS1	http://www.ncbi.nlm.nih.gov/gene/64710	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007769	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	NUP98	http://www.ncbi.nlm.nih.gov/gene/4928	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007770	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	PANK1	http://www.ncbi.nlm.nih.gov/gene/53354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007771	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	PCF11	http://www.ncbi.nlm.nih.gov/gene/51585	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007772	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	PDLIM5	http://www.ncbi.nlm.nih.gov/gene/10611	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007773	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	PHLPP2	http://www.ncbi.nlm.nih.gov/gene/23035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007774	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	PJA2	http://www.ncbi.nlm.nih.gov/gene/9867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007775	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	PLEKHB2	http://www.ncbi.nlm.nih.gov/gene/55041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007776	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	PRKAB2	http://www.ncbi.nlm.nih.gov/gene/5565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007777	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	PUM2	http://www.ncbi.nlm.nih.gov/gene/23369	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007778	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	PURA	http://www.ncbi.nlm.nih.gov/gene/5813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007779	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	RAB12	http://www.ncbi.nlm.nih.gov/gene/201475	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007780	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	RAB14	http://www.ncbi.nlm.nih.gov/gene/51552	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007781	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	RNF111	http://www.ncbi.nlm.nih.gov/gene/54778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007782	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007783	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	RREB1	http://www.ncbi.nlm.nih.gov/gene/6239	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007784	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	RRP1B	http://www.ncbi.nlm.nih.gov/gene/23076	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007785	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	RSF1	http://www.ncbi.nlm.nih.gov/gene/51773	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007786	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	SACM1L	http://www.ncbi.nlm.nih.gov/gene/22908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007787	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	SCOC	http://www.ncbi.nlm.nih.gov/gene/60592	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007788	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	SEC14L1	http://www.ncbi.nlm.nih.gov/gene/6397	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007789	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	SEC24D	http://www.ncbi.nlm.nih.gov/gene/9871	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007790	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	SEC31A	http://www.ncbi.nlm.nih.gov/gene/22872	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007791	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	SIAH1	http://www.ncbi.nlm.nih.gov/gene/6477	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007792	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	SMAD3	http://www.ncbi.nlm.nih.gov/gene/4088	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007793	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	SP100	http://www.ncbi.nlm.nih.gov/gene/6672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007794	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	SSU72	http://www.ncbi.nlm.nih.gov/gene/29101	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007795	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	STXBP3	http://www.ncbi.nlm.nih.gov/gene/6814	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007796	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	TACC1	http://www.ncbi.nlm.nih.gov/gene/6867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007797	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	TAOK1	http://www.ncbi.nlm.nih.gov/gene/57551	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007798	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	TAOK3	http://www.ncbi.nlm.nih.gov/gene/51347	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007799	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	TBC1D13	http://www.ncbi.nlm.nih.gov/gene/54662	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007800	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	TET3	http://www.ncbi.nlm.nih.gov/gene/200424	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007801	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	TLN1	http://www.ncbi.nlm.nih.gov/gene/7094	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007802	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	TMEM55B	http://www.ncbi.nlm.nih.gov/gene/90809	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007803	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	TNIP1	http://www.ncbi.nlm.nih.gov/gene/10318	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007804	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	TNXA	http://www.ncbi.nlm.nih.gov/gene/7148	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007805	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	TTPAL	http://www.ncbi.nlm.nih.gov/gene/79183	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007806	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	TXN2	http://www.ncbi.nlm.nih.gov/gene/25828	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007807	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	UBE4A	http://www.ncbi.nlm.nih.gov/gene/9354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007808	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	UCP2	http://www.ncbi.nlm.nih.gov/gene/7351	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007809	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	WDR75	http://www.ncbi.nlm.nih.gov/gene/84128	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007810	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	WIBG	http://www.ncbi.nlm.nih.gov/gene/84305	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007811	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	XPO1	http://www.ncbi.nlm.nih.gov/gene/7514	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007812	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	ZBTB33	http://www.ncbi.nlm.nih.gov/gene/10009	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007813	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	ZBTB9	http://www.ncbi.nlm.nih.gov/gene/221504	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007814	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	ZNF192	http://www.ncbi.nlm.nih.gov/gene/7745	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007815	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-5p(miR-K6-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002188	BC-1	-	Host	mRNA	ZNF254	http://www.ncbi.nlm.nih.gov/gene/9534	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007816	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-7-5p(miR-K7*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015217	BC-1	-	Host	mRNA	CRKL	http://www.ncbi.nlm.nih.gov/gene/1399	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007817	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-7-5p(miR-K7*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015217	BC-1	-	Host	mRNA	UBE2F	http://www.ncbi.nlm.nih.gov/gene/140739	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007818	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-7-5p(miR-K7*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015217	BC-1	-	Host	mRNA	VAMP2	http://www.ncbi.nlm.nih.gov/gene/6844	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007819	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BCBL1	-	Host	mRNA	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/731605	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00007820	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	ATXN1L	http://www.ncbi.nlm.nih.gov/gene/342371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007821	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	C4orf43	http://www.ncbi.nlm.nih.gov/gene/55319	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007822	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	CANT1	http://www.ncbi.nlm.nih.gov/gene/124583	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007823	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	ETV3	http://www.ncbi.nlm.nih.gov/gene/2117	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007824	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	FAM126B	http://www.ncbi.nlm.nih.gov/gene/285172	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007825	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	FAM60A	http://www.ncbi.nlm.nih.gov/gene/728592	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007826	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	GSK3B	http://www.ncbi.nlm.nih.gov/gene/2932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007827	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	HOXB7	http://www.ncbi.nlm.nih.gov/gene/3217	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007828	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	JARID2	http://www.ncbi.nlm.nih.gov/gene/3720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007829	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	MFN2	http://www.ncbi.nlm.nih.gov/gene/9927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007830	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	MTPN	http://www.ncbi.nlm.nih.gov/gene/767558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007831	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	NPLOC4	http://www.ncbi.nlm.nih.gov/gene/55666	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007832	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007833	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	PRICKLE4	http://www.ncbi.nlm.nih.gov/gene/29964	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007834	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	RPL27A	http://www.ncbi.nlm.nih.gov/gene/6157	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007835	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	SFRS6	http://www.ncbi.nlm.nih.gov/gene/644422	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007836	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	SLC9A6	http://www.ncbi.nlm.nih.gov/gene/10479	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007837	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	SOLH	http://www.ncbi.nlm.nih.gov/gene/6650	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007838	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	TLK1	http://www.ncbi.nlm.nih.gov/gene/9874	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007839	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	TMEM39A	http://www.ncbi.nlm.nih.gov/gene/55254	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007840	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	UBN2	http://www.ncbi.nlm.nih.gov/gene/254048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007841	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	ZNF419	http://www.ncbi.nlm.nih.gov/gene/79744	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007842	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	ZNF462	http://www.ncbi.nlm.nih.gov/gene/58499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007843	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-1	-	Host	mRNA	ZNF644	http://www.ncbi.nlm.nih.gov/gene/84146	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007844	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	ATXN1L	http://www.ncbi.nlm.nih.gov/gene/342371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007845	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	BST2	http://www.ncbi.nlm.nih.gov/gene/100129681	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007846	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	CASP7	http://www.ncbi.nlm.nih.gov/gene/840	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007847	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	DHX33	http://www.ncbi.nlm.nih.gov/gene/56919	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007848	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	FAM60A	http://www.ncbi.nlm.nih.gov/gene/728592	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007849	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	GSK3B	http://www.ncbi.nlm.nih.gov/gene/2932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007850	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	GTPBP10	http://www.ncbi.nlm.nih.gov/gene/85865	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007851	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	KBTBD11	http://www.ncbi.nlm.nih.gov/gene/9920	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007852	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	MFN2	http://www.ncbi.nlm.nih.gov/gene/9927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007853	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	NDUFA7	http://www.ncbi.nlm.nih.gov/gene/4701	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007854	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	PRICKLE4	http://www.ncbi.nlm.nih.gov/gene/29964	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007855	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	RCC1	http://www.ncbi.nlm.nih.gov/gene/1104	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007856	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	RHOG	http://www.ncbi.nlm.nih.gov/gene/391	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007857	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	RPL27A	http://www.ncbi.nlm.nih.gov/gene/6157	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007858	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	SOLH	http://www.ncbi.nlm.nih.gov/gene/6650	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007859	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	TMEM39A	http://www.ncbi.nlm.nih.gov/gene/55254	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007860	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	UBN2	http://www.ncbi.nlm.nih.gov/gene/254048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007861	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-8-5p(miR-K8*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015216	BC-3	-	Host	mRNA	ZNRF2	http://www.ncbi.nlm.nih.gov/gene/223082	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007862	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-3p(miR-K12-9-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002185	-	-	Host	mRNA	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00007863	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	ACTR2	http://www.ncbi.nlm.nih.gov/gene/10097	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007864	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	ALS2	http://www.ncbi.nlm.nih.gov/gene/57679	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007865	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	AP1G1	http://www.ncbi.nlm.nih.gov/gene/164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007866	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	CDKN1A	http://www.ncbi.nlm.nih.gov/gene/1026	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007867	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	DCBLD2	http://www.ncbi.nlm.nih.gov/gene/131566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007868	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	DHRS7B	http://www.ncbi.nlm.nih.gov/gene/25979	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007869	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	FBXO11	http://www.ncbi.nlm.nih.gov/gene/80204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007870	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	G3BP2	http://www.ncbi.nlm.nih.gov/gene/9908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007871	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	HIC2	http://www.ncbi.nlm.nih.gov/gene/23119	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007872	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	HNRNPF	http://www.ncbi.nlm.nih.gov/gene/3185	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007873	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	HSPA1B	http://www.ncbi.nlm.nih.gov/gene/3303	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007874	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	JAK3	http://www.ncbi.nlm.nih.gov/gene/3718	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007875	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	KBTBD8	http://www.ncbi.nlm.nih.gov/gene/84541	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007876	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	KIAA0232	http://www.ncbi.nlm.nih.gov/gene/9778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007877	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	KIAA0494	http://www.ncbi.nlm.nih.gov/gene/9813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007878	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	LMBR1	http://www.ncbi.nlm.nih.gov/gene/64327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007879	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	LRMP	http://www.ncbi.nlm.nih.gov/gene/4033	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007880	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	MAP3K7IP2	http://www.ncbi.nlm.nih.gov/gene/23118 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007881	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	MOCS3	http://www.ncbi.nlm.nih.gov/gene/27304	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007882	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	NT5DC3	http://www.ncbi.nlm.nih.gov/gene/51559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007883	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007884	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	NUP155	http://www.ncbi.nlm.nih.gov/gene/9631	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007885	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	PHF1	http://www.ncbi.nlm.nih.gov/gene/5252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007886	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	POLR3A	http://www.ncbi.nlm.nih.gov/gene/11128	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007887	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	RAB8B	http://www.ncbi.nlm.nih.gov/gene/51762	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007888	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	SDCBP	http://www.ncbi.nlm.nih.gov/gene/6386	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007889	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	SDF2	http://www.ncbi.nlm.nih.gov/gene/6388	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007890	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	SEC24C	http://www.ncbi.nlm.nih.gov/gene/9632	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007891	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	SET	http://www.ncbi.nlm.nih.gov/gene/646817	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007892	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	SFRS3	http://www.ncbi.nlm.nih.gov/gene/6428	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007893	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	SLC5A3	http://www.ncbi.nlm.nih.gov/gene/6526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007894	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	SYNCRIP	http://www.ncbi.nlm.nih.gov/gene/10492	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007895	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	TNFRSF10B	http://www.ncbi.nlm.nih.gov/gene/8795	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007896	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	TSC22D1	http://www.ncbi.nlm.nih.gov/gene/8848	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007897	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	USP2	http://www.ncbi.nlm.nih.gov/gene/9099	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007898	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	VAMP3	http://www.ncbi.nlm.nih.gov/gene/9341	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007899	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	VOPP1	http://www.ncbi.nlm.nih.gov/gene/729086	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007900	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	ZSCAN12	http://www.ncbi.nlm.nih.gov/gene/9753	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007901	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	BC-1	-	Host	mRNA	ZXDC	http://www.ncbi.nlm.nih.gov/gene/79364	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007902	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	RTA	http://www.ncbi.nlm.nih.gov/gene/116535	Downregulation	3'UTR  indicator assays ,RIP-CHIP.	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00007903	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miRK9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	-	-	Host	mRNA	RTA	http://www.ncbi.nlm.nih.gov/gene/116535	Downregulation	Luciferase/RTA chimeric reporter.	20006845	Here we show that at least one of these miRNAs, miRK9*, targets a sequence in the 3' UTR of the mRNA encoding the major lytic switch protein (RTA), which controls reactivation from latency. Mutation of the recognition sequence in the RTA 3'UTR abolishes RTA downregulation by miRK9*..
VHID00007904	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	Protein	RAD21	http://www.ncbi.nlm.nih.gov/gene/5885	-	Ago-association data and motif detection, Preparation of small RNA libraries, Northern blot analysis, Luciferase assays, Real-time RT-PCR, Western blots, Immunoprecipitation and Northern blot analysis of Ago-RNA complexes.	19812168	We found that Kaposi sarcoma-associated herpesvirus K12-1 miRNA (23 bases) associates with a distinct, unusually small (17-base) RNA (usRNA) that can effectively downregulate a K12-1 miRNA target, human RAD21, suggesting that stable degradation-like products may also contribute to gene regulation.
VHID00007905	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BCBL1	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00007906	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BCBL1	-	Host	mRNA	RAD21	http://www.ncbi.nlm.nih.gov/gene/5885	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00007907	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BCBL1	-	Host	mRNA	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00007908	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ABHD10	http://www.ncbi.nlm.nih.gov/gene/55347	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007909	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ADO	http://www.ncbi.nlm.nih.gov/gene/84890	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007910	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ANKRD44	http://www.ncbi.nlm.nih.gov/gene/91526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007911	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ANLN	http://www.ncbi.nlm.nih.gov/gene/54443	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007912	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ANXA5	http://www.ncbi.nlm.nih.gov/gene/308	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007913	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	AP1G1	http://www.ncbi.nlm.nih.gov/gene/164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007914	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	AP1S1	http://www.ncbi.nlm.nih.gov/gene/1174	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007915	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	APC	http://www.ncbi.nlm.nih.gov/gene/324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007916	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	APOM	http://www.ncbi.nlm.nih.gov/gene/55937	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007917	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ARID1A	http://www.ncbi.nlm.nih.gov/gene/8289	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007918	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ARL5A	http://www.ncbi.nlm.nih.gov/gene/26225	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007919	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ARMC10	http://www.ncbi.nlm.nih.gov/gene/83787	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007920	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ARPP19	http://www.ncbi.nlm.nih.gov/gene/646227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007921	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ASXL2	http://www.ncbi.nlm.nih.gov/gene/55252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007922	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ATL2	http://www.ncbi.nlm.nih.gov/gene/64225	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007923	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ATP11B	http://www.ncbi.nlm.nih.gov/gene/23200	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007924	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ATP13A3	http://www.ncbi.nlm.nih.gov/gene/79572	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007925	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ATP6V1B2	http://www.ncbi.nlm.nih.gov/gene/526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007926	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ATP9B	http://www.ncbi.nlm.nih.gov/gene/374868	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007927	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	AXIN2	http://www.ncbi.nlm.nih.gov/gene/8313	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007928	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	BCL11A	http://www.ncbi.nlm.nih.gov/gene/53335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007929	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	BCOR	http://www.ncbi.nlm.nih.gov/gene/54880	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007930	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	BHLHB9	http://www.ncbi.nlm.nih.gov/gene/80823	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007931	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	BNIP2	http://www.ncbi.nlm.nih.gov/gene/663	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007932	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	BRWD3	http://www.ncbi.nlm.nih.gov/gene/254065	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007933	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	C11orf82	http://www.ncbi.nlm.nih.gov/gene/220042	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007934	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	C12orf35	http://www.ncbi.nlm.nih.gov/gene/55196	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007935	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	C13orf23	http://www.ncbi.nlm.nih.gov/gene/80209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007936	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	C15orf23	http://www.ncbi.nlm.nih.gov/gene/90417	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007937	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	C16orf63	http://www.ncbi.nlm.nih.gov/gene/123811	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007938	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	C18orf25	http://www.ncbi.nlm.nih.gov/gene/147339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007939	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	C1orf103	http://www.ncbi.nlm.nih.gov/gene/55791	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007940	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	C1orf107	http://www.ncbi.nlm.nih.gov/gene/27042	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007941	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	C1orf77	http://www.ncbi.nlm.nih.gov/gene/26097	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007942	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	C2orf37	http://www.ncbi.nlm.nih.gov/gene/80067 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007943	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	C3orf64	http://www.ncbi.nlm.nih.gov/gene/285203	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007944	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	C5orf44	http://www.ncbi.nlm.nih.gov/gene/80006	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007945	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	C6orf167	http://www.ncbi.nlm.nih.gov/gene/253714	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007946	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	C7orf42	http://www.ncbi.nlm.nih.gov/gene/55069	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007947	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	C7orf60	http://www.ncbi.nlm.nih.gov/gene/154743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007948	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CALCRL	http://www.ncbi.nlm.nih.gov/gene/10203	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007949	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CALM1	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007950	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CALM3	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007951	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007952	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CAST	http://www.ncbi.nlm.nih.gov/gene/831	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007953	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CBL	http://www.ncbi.nlm.nih.gov/gene/867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007954	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CCDC82	http://www.ncbi.nlm.nih.gov/gene/79780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007955	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CCND2	http://www.ncbi.nlm.nih.gov/gene/894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007956	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007957	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CD164	http://www.ncbi.nlm.nih.gov/gene/8763	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007958	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CD47	http://www.ncbi.nlm.nih.gov/gene/961	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007959	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CDC2L6	http://www.ncbi.nlm.nih.gov/gene/23097 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007960	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CDKN1A	http://www.ncbi.nlm.nih.gov/gene/1026	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007961	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CDR2	http://www.ncbi.nlm.nih.gov/gene/1039	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007962	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CHD9	http://www.ncbi.nlm.nih.gov/gene/80205	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007963	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CHRAC1	http://www.ncbi.nlm.nih.gov/gene/54108	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007964	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CLDN12	http://www.ncbi.nlm.nih.gov/gene/9069	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007965	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CNOT3	http://www.ncbi.nlm.nih.gov/gene/4849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007966	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CNP	http://www.ncbi.nlm.nih.gov/gene/1267	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007967	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	COMMD7	http://www.ncbi.nlm.nih.gov/gene/149951	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007968	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	COPS5	http://www.ncbi.nlm.nih.gov/gene/10987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007969	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	COX5B	http://www.ncbi.nlm.nih.gov/gene/1329	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007970	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CPEB4	http://www.ncbi.nlm.nih.gov/gene/80315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007971	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CPNE3	http://www.ncbi.nlm.nih.gov/gene/8895	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007972	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CRKL	http://www.ncbi.nlm.nih.gov/gene/1399	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007973	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CSPP1	http://www.ncbi.nlm.nih.gov/gene/79848	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007974	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CTNNB1	http://www.ncbi.nlm.nih.gov/gene/1499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007975	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	CWC15	http://www.ncbi.nlm.nih.gov/gene/51503	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007976	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	DCBLD2	http://www.ncbi.nlm.nih.gov/gene/131566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007977	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	DCP2	http://www.ncbi.nlm.nih.gov/gene/167227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007978	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	DCTN4	http://www.ncbi.nlm.nih.gov/gene/51164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007979	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	DDX46	http://www.ncbi.nlm.nih.gov/gene/9879	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007980	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	DDX47	http://www.ncbi.nlm.nih.gov/gene/51202	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007981	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	DECR2	http://www.ncbi.nlm.nih.gov/gene/26063	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007982	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	DNAJA1	http://www.ncbi.nlm.nih.gov/gene/3301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007983	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	DUSP1	http://www.ncbi.nlm.nih.gov/gene/1843	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007984	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	DUSP16	http://www.ncbi.nlm.nih.gov/gene/80824	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007985	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	E2F7	http://www.ncbi.nlm.nih.gov/gene/144455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007986	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	EIF2C4	http://www.ncbi.nlm.nih.gov/gene/192670	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007987	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ELF1	http://www.ncbi.nlm.nih.gov/gene/1997	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007988	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	EPC1	http://www.ncbi.nlm.nih.gov/gene/80314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007989	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	EPN2	http://www.ncbi.nlm.nih.gov/gene/22905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007990	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	EPS15	http://www.ncbi.nlm.nih.gov/gene/2060	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007991	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ERP44	http://www.ncbi.nlm.nih.gov/gene/23071	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007992	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ETNK1	http://www.ncbi.nlm.nih.gov/gene/55500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007993	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ETV1	http://www.ncbi.nlm.nih.gov/gene/2115	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007994	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	FAM103A1	http://www.ncbi.nlm.nih.gov/gene/83640	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007995	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	FAM107B	http://www.ncbi.nlm.nih.gov/gene/83641	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007996	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	FAM114A2	http://www.ncbi.nlm.nih.gov/gene/10827	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007997	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	FAM175A	http://www.ncbi.nlm.nih.gov/gene/84142	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007998	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	FAM178A	http://www.ncbi.nlm.nih.gov/gene/55719	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00007999	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	FAM96A	http://www.ncbi.nlm.nih.gov/gene/84191	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008000	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	FEM1B	http://www.ncbi.nlm.nih.gov/gene/10116	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008001	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	FNDC3A	http://www.ncbi.nlm.nih.gov/gene/22862	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008002	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	FNDC3B	http://www.ncbi.nlm.nih.gov/gene/64778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008003	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	FOXK1	http://www.ncbi.nlm.nih.gov/gene/221937	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008004	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	FOXN2	http://www.ncbi.nlm.nih.gov/gene/3344	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008005	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	FRMD6	http://www.ncbi.nlm.nih.gov/gene/122786	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008006	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	FZD6	http://www.ncbi.nlm.nih.gov/gene/8323	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008007	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	GBP4	http://www.ncbi.nlm.nih.gov/gene/115361	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008008	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	GCLM	http://www.ncbi.nlm.nih.gov/gene/2730	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008009	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	GIT2	http://www.ncbi.nlm.nih.gov/gene/9815	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008010	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	GK5	http://www.ncbi.nlm.nih.gov/gene/256356	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008011	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	GLCCI1	http://www.ncbi.nlm.nih.gov/gene/113263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008012	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	GNB1	http://www.ncbi.nlm.nih.gov/gene/2782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008013	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	GOPC	http://www.ncbi.nlm.nih.gov/gene/57120	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008014	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	GORASP2	http://www.ncbi.nlm.nih.gov/gene/26003	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008015	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	GPATCH2	http://www.ncbi.nlm.nih.gov/gene/55105	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008016	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	GRAMD4	http://www.ncbi.nlm.nih.gov/gene/23151	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008017	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	GTF2H1	http://www.ncbi.nlm.nih.gov/gene/2965	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008018	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	GTPBP8	http://www.ncbi.nlm.nih.gov/gene/29083	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008019	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	GYPE	http://www.ncbi.nlm.nih.gov/gene/2996	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008020	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	HDAC2	http://www.ncbi.nlm.nih.gov/gene/3066	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008021	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	HECTD1	http://www.ncbi.nlm.nih.gov/gene/25831	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008022	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	HELLS	http://www.ncbi.nlm.nih.gov/gene/3070	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008023	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	HIF1A	http://www.ncbi.nlm.nih.gov/gene/3091	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008024	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	HMGXB4	http://www.ncbi.nlm.nih.gov/gene/10042	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008025	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	HNRNPA2B1	http://www.ncbi.nlm.nih.gov/gene/3181	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008026	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	HNRNPU	http://www.ncbi.nlm.nih.gov/gene/3192	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008027	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	HS3ST3B1	http://www.ncbi.nlm.nih.gov/gene/9953	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008028	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	IDE	http://www.ncbi.nlm.nih.gov/gene/3416	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008029	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	IDS	http://www.ncbi.nlm.nih.gov/gene/3423	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008030	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	IFT140	http://www.ncbi.nlm.nih.gov/gene/9742	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008031	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	IL16	http://www.ncbi.nlm.nih.gov/gene/3603	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008032	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	IPO7	http://www.ncbi.nlm.nih.gov/gene/10527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008033	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	IRF4	http://www.ncbi.nlm.nih.gov/gene/3662	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008034	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	KDM5A	http://www.ncbi.nlm.nih.gov/gene/5927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008035	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	KIAA0513	http://www.ncbi.nlm.nih.gov/gene/9764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008036	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	KIAA1012	http://www.ncbi.nlm.nih.gov/gene/22878	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008037	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	KIAA2018	http://www.ncbi.nlm.nih.gov/gene/205717	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008038	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	KIF1B	http://www.ncbi.nlm.nih.gov/gene/23095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008039	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	KLF12	http://www.ncbi.nlm.nih.gov/gene/11278	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008040	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	KLHDC10	http://www.ncbi.nlm.nih.gov/gene/23008	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008041	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	KLHDC2	http://www.ncbi.nlm.nih.gov/gene/23588	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008042	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	KLHDC5	http://www.ncbi.nlm.nih.gov/gene/57542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008043	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	KLHL18	http://www.ncbi.nlm.nih.gov/gene/23276	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008044	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	KPNA1	http://www.ncbi.nlm.nih.gov/gene/3836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008045	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	KPNA4	http://www.ncbi.nlm.nih.gov/gene/3840	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008046	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	KPNA6	http://www.ncbi.nlm.nih.gov/gene/23633	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008047	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	KTELC1	http://www.ncbi.nlm.nih.gov/gene/56983	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008048	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	LARP4B	http://www.ncbi.nlm.nih.gov/gene/23185	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008049	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	LBR	http://www.ncbi.nlm.nih.gov/gene/3930	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008050	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	LIMD1	http://www.ncbi.nlm.nih.gov/gene/8994	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008051	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	LSM14B	http://www.ncbi.nlm.nih.gov/gene/149986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008052	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	LYN	http://www.ncbi.nlm.nih.gov/gene/4067	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008053	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	LYPLA1	http://www.ncbi.nlm.nih.gov/gene/10434	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008054	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	LYSMD1	http://www.ncbi.nlm.nih.gov/gene/388695	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008055	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	LZIC	http://www.ncbi.nlm.nih.gov/gene/84328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008056	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MAGOHB	http://www.ncbi.nlm.nih.gov/gene/55110	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008057	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MAP3K7IP3	http://www.ncbi.nlm.nih.gov/gene/257397 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008058	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MBD2	http://www.ncbi.nlm.nih.gov/gene/8932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008059	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MBP	http://www.ncbi.nlm.nih.gov/gene/4155	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008060	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MBTPS2	http://www.ncbi.nlm.nih.gov/gene/51360	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008061	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MDM2	http://www.ncbi.nlm.nih.gov/gene/4193	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008062	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MECP2	http://www.ncbi.nlm.nih.gov/gene/4204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008063	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MEF2C	http://www.ncbi.nlm.nih.gov/gene/4208	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008064	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MEX3C	http://www.ncbi.nlm.nih.gov/gene/51320	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008065	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MKL2	http://www.ncbi.nlm.nih.gov/gene/57496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008066	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MKRN1	http://www.ncbi.nlm.nih.gov/gene/23608	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008067	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MLL	http://www.ncbi.nlm.nih.gov/gene/4297	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008068	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MLLT10	http://www.ncbi.nlm.nih.gov/gene/8028	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008069	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MORF4L2	http://www.ncbi.nlm.nih.gov/gene/9643	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008070	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MPP6	http://www.ncbi.nlm.nih.gov/gene/51678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008071	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MPPE1	http://www.ncbi.nlm.nih.gov/gene/65258	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008072	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MRPL34	http://www.ncbi.nlm.nih.gov/gene/64981	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008073	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MTDH	http://www.ncbi.nlm.nih.gov/gene/92140	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008074	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MTG1	http://www.ncbi.nlm.nih.gov/gene/92170	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008075	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MTMR2	http://www.ncbi.nlm.nih.gov/gene/8898	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008076	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MTPN	http://www.ncbi.nlm.nih.gov/gene/767558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008077	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MTUS1	http://www.ncbi.nlm.nih.gov/gene/57509	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008078	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	MTX3	http://www.ncbi.nlm.nih.gov/gene/345778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008079	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	NAF1	http://www.ncbi.nlm.nih.gov/gene/92345	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008080	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	NCOA3	http://www.ncbi.nlm.nih.gov/gene/8202	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008081	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	NCOR1	http://www.ncbi.nlm.nih.gov/gene/9611	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008082	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	NDFIP1	http://www.ncbi.nlm.nih.gov/gene/80762	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008083	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	NDFIP2	http://www.ncbi.nlm.nih.gov/gene/54602	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008084	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	NFAT5	http://www.ncbi.nlm.nih.gov/gene/10725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008085	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	NFE2L2	http://www.ncbi.nlm.nih.gov/gene/4780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008086	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	NMI	http://www.ncbi.nlm.nih.gov/gene/9111	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008087	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	NR1D2	http://www.ncbi.nlm.nih.gov/gene/9975	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008088	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	NR3C1	http://www.ncbi.nlm.nih.gov/gene/2908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008089	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	NT5DC1	http://www.ncbi.nlm.nih.gov/gene/221294	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008090	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	NUDT5	http://www.ncbi.nlm.nih.gov/gene/11164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008091	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008092	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	NUP205	http://www.ncbi.nlm.nih.gov/gene/23165	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008093	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	NUP43	http://www.ncbi.nlm.nih.gov/gene/348995	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008094	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	OGT	http://www.ncbi.nlm.nih.gov/gene/8473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008095	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	OPN3	http://www.ncbi.nlm.nih.gov/gene/23596	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008096	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	OTUD3	http://www.ncbi.nlm.nih.gov/gene/23252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008097	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	OXR1	http://www.ncbi.nlm.nih.gov/gene/55074	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008098	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PACRGL	http://www.ncbi.nlm.nih.gov/gene/133015	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008099	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PAFAH1B1	http://www.ncbi.nlm.nih.gov/gene/5048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008100	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PAPD5	http://www.ncbi.nlm.nih.gov/gene/64282	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008101	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PBRM1	http://www.ncbi.nlm.nih.gov/gene/55193	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008102	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PCNX	http://www.ncbi.nlm.nih.gov/gene/22990	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008103	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PDE4D	http://www.ncbi.nlm.nih.gov/gene/5144	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008104	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PDE7A	http://www.ncbi.nlm.nih.gov/gene/5150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008105	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PDIK1L	http://www.ncbi.nlm.nih.gov/gene/149420	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008106	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PER2	http://www.ncbi.nlm.nih.gov/gene/8864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008107	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PEX11B	http://www.ncbi.nlm.nih.gov/gene/8799	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008108	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PHF3	http://www.ncbi.nlm.nih.gov/gene/23469	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008109	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PIP5K1C	http://www.ncbi.nlm.nih.gov/gene/23396	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008110	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PLCXD2	http://www.ncbi.nlm.nih.gov/gene/90102	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008111	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	POLS	http://www.ncbi.nlm.nih.gov/gene/11044 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008112	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008113	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PPM1K	http://www.ncbi.nlm.nih.gov/gene/152926	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008114	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PPP1R15B	http://www.ncbi.nlm.nih.gov/gene/84919	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008115	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PPP1R8	http://www.ncbi.nlm.nih.gov/gene/5511	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008116	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PPP2CA	http://www.ncbi.nlm.nih.gov/gene/5515	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008117	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PRDM15	http://www.ncbi.nlm.nih.gov/gene/63977	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008118	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PROK2	http://www.ncbi.nlm.nih.gov/gene/60675	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008119	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PSAT1	http://www.ncbi.nlm.nih.gov/gene/137133	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008120	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PTPN13	http://www.ncbi.nlm.nih.gov/gene/5783	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008121	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PUM2	http://www.ncbi.nlm.nih.gov/gene/23369	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008122	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PURB	http://www.ncbi.nlm.nih.gov/gene/5814	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008123	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	PXT1	http://www.ncbi.nlm.nih.gov/gene/222659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008124	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RAB3GAP2	http://www.ncbi.nlm.nih.gov/gene/25782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008125	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RABEP1	http://www.ncbi.nlm.nih.gov/gene/9135	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008126	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RABL5	http://www.ncbi.nlm.nih.gov/gene/64792	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008127	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RAD21	http://www.ncbi.nlm.nih.gov/gene/5885	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008128	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RAD23B	http://www.ncbi.nlm.nih.gov/gene/5887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008129	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RALGPS1	http://www.ncbi.nlm.nih.gov/gene/9649	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008130	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RANBP9	http://www.ncbi.nlm.nih.gov/gene/10048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008131	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RAPGEF2	http://www.ncbi.nlm.nih.gov/gene/9693	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008132	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RAPH1	http://www.ncbi.nlm.nih.gov/gene/65059	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008133	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RBAK	http://www.ncbi.nlm.nih.gov/gene/389458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008134	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RBM22	http://www.ncbi.nlm.nih.gov/gene/55696	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008135	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RBM27	http://www.ncbi.nlm.nih.gov/gene/54439	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008136	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RBPSUH	http://www.ncbi.nlm.nih.gov/gene/3516	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008137	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RC3H1	http://www.ncbi.nlm.nih.gov/gene/149041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008138	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RFX7	http://www.ncbi.nlm.nih.gov/gene/64864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008139	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RFXAP	http://www.ncbi.nlm.nih.gov/gene/5994	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008140	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RLIM	http://www.ncbi.nlm.nih.gov/gene/51132	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008141	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RNF160	http://www.ncbi.nlm.nih.gov/gene/26046	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008142	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008143	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RPE	http://www.ncbi.nlm.nih.gov/gene/729020	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008144	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RPL7L1	http://www.ncbi.nlm.nih.gov/gene/285855	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008145	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RRAGC	http://www.ncbi.nlm.nih.gov/gene/64121	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008146	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RSF1	http://www.ncbi.nlm.nih.gov/gene/51773	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008147	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	RYBP	http://www.ncbi.nlm.nih.gov/gene/23429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008148	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SCARB2	http://www.ncbi.nlm.nih.gov/gene/950	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008149	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SEC14L1	http://www.ncbi.nlm.nih.gov/gene/6397	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008150	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SERP1	http://www.ncbi.nlm.nih.gov/gene/27230	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008151	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SF3A3	http://www.ncbi.nlm.nih.gov/gene/10946	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008152	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SFRS11	http://www.ncbi.nlm.nih.gov/gene/9295	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008153	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SFRS18	http://www.ncbi.nlm.nih.gov/gene/25957	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008154	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SGK3	http://www.ncbi.nlm.nih.gov/gene/23678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008155	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SH3BP2	http://www.ncbi.nlm.nih.gov/gene/6452	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008156	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SLC16A1	http://www.ncbi.nlm.nih.gov/gene/6566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008157	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SLC19A2	http://www.ncbi.nlm.nih.gov/gene/10560	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008158	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SLC30A7	http://www.ncbi.nlm.nih.gov/gene/148867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008159	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SLTM	http://www.ncbi.nlm.nih.gov/gene/79811	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008160	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SMAD4	http://www.ncbi.nlm.nih.gov/gene/4089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008161	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SNN	http://www.ncbi.nlm.nih.gov/gene/8303	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008162	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SNTB2	http://www.ncbi.nlm.nih.gov/gene/6645	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008163	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SNX16	http://www.ncbi.nlm.nih.gov/gene/64089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008164	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SOCS5	http://www.ncbi.nlm.nih.gov/gene/9655	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008165	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SOCS6	http://www.ncbi.nlm.nih.gov/gene/9306	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008166	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SOLH	http://www.ncbi.nlm.nih.gov/gene/6650	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008167	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SP3	http://www.ncbi.nlm.nih.gov/gene/6670	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008168	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SPAG1	http://www.ncbi.nlm.nih.gov/gene/6674	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008169	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SPSB1	http://www.ncbi.nlm.nih.gov/gene/80176	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008170	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SRP54	http://www.ncbi.nlm.nih.gov/gene/650638	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008171	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SRXN1	http://www.ncbi.nlm.nih.gov/gene/140809	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008172	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	STK17A	http://www.ncbi.nlm.nih.gov/gene/9263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008173	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	STX12	http://www.ncbi.nlm.nih.gov/gene/23673	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008174	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	STX16	http://www.ncbi.nlm.nih.gov/gene/8675	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008175	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	SUMO3	http://www.ncbi.nlm.nih.gov/gene/285829	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008176	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TANC2	http://www.ncbi.nlm.nih.gov/gene/26115	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008177	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TCF4	http://www.ncbi.nlm.nih.gov/gene/6925	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008178	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TET3	http://www.ncbi.nlm.nih.gov/gene/200424	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008179	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TFAP4	http://www.ncbi.nlm.nih.gov/gene/7023	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008180	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TGIF2	http://www.ncbi.nlm.nih.gov/gene/60436	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008181	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	THAP1	http://www.ncbi.nlm.nih.gov/gene/55145	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008182	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TM7SF3	http://www.ncbi.nlm.nih.gov/gene/51768	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008183	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TMEM181	http://www.ncbi.nlm.nih.gov/gene/57583	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008184	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TMEM192	http://www.ncbi.nlm.nih.gov/gene/201931	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008185	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TNFRSF10B	http://www.ncbi.nlm.nih.gov/gene/8795	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008186	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TNRC6B	http://www.ncbi.nlm.nih.gov/gene/23112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008187	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TOMM20	http://www.ncbi.nlm.nih.gov/gene/100129272	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008188	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TRIO	http://www.ncbi.nlm.nih.gov/gene/7204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008189	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TRMT61B	http://www.ncbi.nlm.nih.gov/gene/55006	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008190	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TROVE2	http://www.ncbi.nlm.nih.gov/gene/6738	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008191	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TSHZ1	http://www.ncbi.nlm.nih.gov/gene/10194	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008192	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TSR1	http://www.ncbi.nlm.nih.gov/gene/55720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008193	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TTC35	http://www.ncbi.nlm.nih.gov/gene/9694	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008194	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TTLL11	http://www.ncbi.nlm.nih.gov/gene/158135	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008195	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TUBA1B	http://www.ncbi.nlm.nih.gov/gene/10376	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008196	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TUBA1C	http://www.ncbi.nlm.nih.gov/gene/84790	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008197	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TXLNA	http://www.ncbi.nlm.nih.gov/gene/200081	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008198	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	TXNDC9	http://www.ncbi.nlm.nih.gov/gene/10190	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008199	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	UBA5	http://www.ncbi.nlm.nih.gov/gene/79876	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008200	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	UBA6	http://www.ncbi.nlm.nih.gov/gene/55236	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008201	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	UBE2D1	http://www.ncbi.nlm.nih.gov/gene/7321	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008202	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	UBE2F	http://www.ncbi.nlm.nih.gov/gene/140739	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008203	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	UBE2K	http://www.ncbi.nlm.nih.gov/gene/3093	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008204	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	UBL3	http://www.ncbi.nlm.nih.gov/gene/5412	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008205	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	UNC119B	http://www.ncbi.nlm.nih.gov/gene/84747	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008206	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	USP3	http://www.ncbi.nlm.nih.gov/gene/9960	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008207	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	USP33	http://www.ncbi.nlm.nih.gov/gene/23032	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008208	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	UTP15	http://www.ncbi.nlm.nih.gov/gene/84135	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008209	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	VANGL1	http://www.ncbi.nlm.nih.gov/gene/81839	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008210	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	VEZT	http://www.ncbi.nlm.nih.gov/gene/55591	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008211	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	WASL	http://www.ncbi.nlm.nih.gov/gene/8976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008212	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	WBP11	http://www.ncbi.nlm.nih.gov/gene/51729	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008213	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	WEE1	http://www.ncbi.nlm.nih.gov/gene/7465	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008214	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	XPO1	http://www.ncbi.nlm.nih.gov/gene/7514	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008215	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	YIPF5	http://www.ncbi.nlm.nih.gov/gene/81555	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008216	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	YOD1	http://www.ncbi.nlm.nih.gov/gene/55432	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008217	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	YY1	http://www.ncbi.nlm.nih.gov/gene/7528	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008218	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZBTB1	http://www.ncbi.nlm.nih.gov/gene/22890	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008219	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZBTB33	http://www.ncbi.nlm.nih.gov/gene/10009	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008220	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZBTB39	http://www.ncbi.nlm.nih.gov/gene/9880	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008221	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZFP36L2	http://www.ncbi.nlm.nih.gov/gene/678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008222	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZFP91	http://www.ncbi.nlm.nih.gov/gene/386607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008223	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZFYVE20	http://www.ncbi.nlm.nih.gov/gene/64145	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008224	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZHX3	http://www.ncbi.nlm.nih.gov/gene/23051	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008225	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZIC2	http://www.ncbi.nlm.nih.gov/gene/7546	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008226	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZMYM2	http://www.ncbi.nlm.nih.gov/gene/7750	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008227	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF124	http://www.ncbi.nlm.nih.gov/gene/7678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008228	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF146	http://www.ncbi.nlm.nih.gov/gene/7705	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008229	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF148	http://www.ncbi.nlm.nih.gov/gene/7707	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008230	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF217	http://www.ncbi.nlm.nih.gov/gene/7764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008231	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF238	http://www.ncbi.nlm.nih.gov/gene/10472	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008232	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF276	http://www.ncbi.nlm.nih.gov/gene/92822	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008233	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF317	http://www.ncbi.nlm.nih.gov/gene/57693	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008234	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF367	http://www.ncbi.nlm.nih.gov/gene/195828	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008235	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF426	http://www.ncbi.nlm.nih.gov/gene/79088	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008236	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF451	http://www.ncbi.nlm.nih.gov/gene/26036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008237	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF498	http://www.ncbi.nlm.nih.gov/gene/221785	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008238	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF517	http://www.ncbi.nlm.nih.gov/gene/340385	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008239	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF561	http://www.ncbi.nlm.nih.gov/gene/729648	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008240	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF654	http://www.ncbi.nlm.nih.gov/gene/55279	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008241	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF678	http://www.ncbi.nlm.nih.gov/gene/339500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008242	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF696	http://www.ncbi.nlm.nih.gov/gene/79943	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008243	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF740	http://www.ncbi.nlm.nih.gov/gene/283337	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008244	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNF828	http://www.ncbi.nlm.nih.gov/gene/283489	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008245	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZNFX1	http://www.ncbi.nlm.nih.gov/gene/57169	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008246	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-1	-	Host	mRNA	ZSCAN29	http://www.ncbi.nlm.nih.gov/gene/146050	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008247	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ABHD10	http://www.ncbi.nlm.nih.gov/gene/55347	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008248	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ADO	http://www.ncbi.nlm.nih.gov/gene/84890	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008249	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	AEN	http://www.ncbi.nlm.nih.gov/gene/64782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008250	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	AFF1	http://www.ncbi.nlm.nih.gov/gene/4299	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008251	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ANKRD17	http://www.ncbi.nlm.nih.gov/gene/26057	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008252	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ANLN	http://www.ncbi.nlm.nih.gov/gene/54443	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008253	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ANXA5	http://www.ncbi.nlm.nih.gov/gene/308	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008254	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	AP1G1	http://www.ncbi.nlm.nih.gov/gene/164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008255	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	AP1S1	http://www.ncbi.nlm.nih.gov/gene/1174	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008256	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ARID1A	http://www.ncbi.nlm.nih.gov/gene/8289	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008257	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ARL6IP6	http://www.ncbi.nlm.nih.gov/gene/151188	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008258	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ARMC10	http://www.ncbi.nlm.nih.gov/gene/83787	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008259	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ARPC5	http://www.ncbi.nlm.nih.gov/gene/10092	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008260	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ARPP19	http://www.ncbi.nlm.nih.gov/gene/646227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008261	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ATP11B	http://www.ncbi.nlm.nih.gov/gene/23200	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008262	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ATXN7L1	http://www.ncbi.nlm.nih.gov/gene/222255	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008263	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	AXIN2	http://www.ncbi.nlm.nih.gov/gene/8313	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008264	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	BCOR	http://www.ncbi.nlm.nih.gov/gene/54880	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008265	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	BDP1	http://www.ncbi.nlm.nih.gov/gene/55814	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008266	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	C11orf30	http://www.ncbi.nlm.nih.gov/gene/56946	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008267	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	C11orf82	http://www.ncbi.nlm.nih.gov/gene/220042	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008268	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	C12orf35	http://www.ncbi.nlm.nih.gov/gene/55196	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008269	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	C13orf23	http://www.ncbi.nlm.nih.gov/gene/80209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008270	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	C15orf23	http://www.ncbi.nlm.nih.gov/gene/90417	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008271	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	C1orf103	http://www.ncbi.nlm.nih.gov/gene/55791	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008272	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	C2orf37	http://www.ncbi.nlm.nih.gov/gene/80067 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008273	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	C5orf44	http://www.ncbi.nlm.nih.gov/gene/80006	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008274	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	C7orf60	http://www.ncbi.nlm.nih.gov/gene/154743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008275	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	C9orf91	http://www.ncbi.nlm.nih.gov/gene/203197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008276	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CALCRL	http://www.ncbi.nlm.nih.gov/gene/10203	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008277	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CALM1	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008278	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CALM3	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008279	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CCDC82	http://www.ncbi.nlm.nih.gov/gene/79780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008280	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CCND2	http://www.ncbi.nlm.nih.gov/gene/894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008281	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CD164	http://www.ncbi.nlm.nih.gov/gene/8763	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008282	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CD59	http://www.ncbi.nlm.nih.gov/gene/966	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008283	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CDC2	http://www.ncbi.nlm.nih.gov/gene/983 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008284	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CDC2L6	http://www.ncbi.nlm.nih.gov/gene/23097 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008285	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CDH2	http://www.ncbi.nlm.nih.gov/gene/1000	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008286	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CDK5R1	http://www.ncbi.nlm.nih.gov/gene/8851	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008287	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CDKN1A	http://www.ncbi.nlm.nih.gov/gene/1026	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008288	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CDR2	http://www.ncbi.nlm.nih.gov/gene/1039	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008289	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CHD9	http://www.ncbi.nlm.nih.gov/gene/80205	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008290	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CLDN12	http://www.ncbi.nlm.nih.gov/gene/9069	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008291	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CNP	http://www.ncbi.nlm.nih.gov/gene/1267	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008292	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	COL4A3BP	http://www.ncbi.nlm.nih.gov/gene/10087	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008293	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	COMMD7	http://www.ncbi.nlm.nih.gov/gene/149951	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008294	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	COPS5	http://www.ncbi.nlm.nih.gov/gene/10987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008295	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CPEB2	http://www.ncbi.nlm.nih.gov/gene/132864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008296	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CPNE3	http://www.ncbi.nlm.nih.gov/gene/8895	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008297	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CSPP1	http://www.ncbi.nlm.nih.gov/gene/79848	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008298	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	CWC15	http://www.ncbi.nlm.nih.gov/gene/51503	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008299	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	DCBLD2	http://www.ncbi.nlm.nih.gov/gene/131566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008300	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	DCP2	http://www.ncbi.nlm.nih.gov/gene/167227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008301	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	DCTN4	http://www.ncbi.nlm.nih.gov/gene/51164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008302	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	DDX46	http://www.ncbi.nlm.nih.gov/gene/9879	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008303	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	DNAJA1	http://www.ncbi.nlm.nih.gov/gene/3301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008304	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	DUSP1	http://www.ncbi.nlm.nih.gov/gene/1843	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008305	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	DUSP16	http://www.ncbi.nlm.nih.gov/gene/80824	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008306	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	EIF1AX	http://www.ncbi.nlm.nih.gov/gene/1964	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008307	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	EIF2C4	http://www.ncbi.nlm.nih.gov/gene/192670	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008308	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	EMB	http://www.ncbi.nlm.nih.gov/gene/133418	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008309	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	EPB41L2	http://www.ncbi.nlm.nih.gov/gene/2037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008310	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	EPS15	http://www.ncbi.nlm.nih.gov/gene/2060	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008311	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ERP44	http://www.ncbi.nlm.nih.gov/gene/23071	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008312	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ETNK1	http://www.ncbi.nlm.nih.gov/gene/55500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008313	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ETV1	http://www.ncbi.nlm.nih.gov/gene/2115	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008314	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	EXOC5	http://www.ncbi.nlm.nih.gov/gene/10640	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008315	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	EXOC6	http://www.ncbi.nlm.nih.gov/gene/54536	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008316	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	FAM103A1	http://www.ncbi.nlm.nih.gov/gene/83640	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008317	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	FAM107B	http://www.ncbi.nlm.nih.gov/gene/83641	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008318	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	FAM175A	http://www.ncbi.nlm.nih.gov/gene/84142	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008319	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	FAM178A	http://www.ncbi.nlm.nih.gov/gene/55719	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008320	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	FAM59A	http://www.ncbi.nlm.nih.gov/gene/64762	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008321	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	FAM96A	http://www.ncbi.nlm.nih.gov/gene/84191	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008322	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	FBXO11	http://www.ncbi.nlm.nih.gov/gene/80204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008323	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	FIGNL1	http://www.ncbi.nlm.nih.gov/gene/63979	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008324	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	FOXK1	http://www.ncbi.nlm.nih.gov/gene/221937	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008325	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	FOXN2	http://www.ncbi.nlm.nih.gov/gene/3344	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008326	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	FRMD6	http://www.ncbi.nlm.nih.gov/gene/122786	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008327	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	FZD6	http://www.ncbi.nlm.nih.gov/gene/8323	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008328	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	GATA3	http://www.ncbi.nlm.nih.gov/gene/2625	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008329	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	GATAD1	http://www.ncbi.nlm.nih.gov/gene/57798	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008330	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	GBP4	http://www.ncbi.nlm.nih.gov/gene/115361	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008331	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	GCLM	http://www.ncbi.nlm.nih.gov/gene/2730	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008332	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	GCNT2	http://www.ncbi.nlm.nih.gov/gene/2651	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008333	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	GLCCI1	http://www.ncbi.nlm.nih.gov/gene/113263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008334	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	GNAI1	http://www.ncbi.nlm.nih.gov/gene/2770	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008335	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	GNB1	http://www.ncbi.nlm.nih.gov/gene/2782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008336	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	GORASP2	http://www.ncbi.nlm.nih.gov/gene/26003	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008337	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	GRAMD4	http://www.ncbi.nlm.nih.gov/gene/23151	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008338	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	GRPEL2	http://www.ncbi.nlm.nih.gov/gene/134266	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008339	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	GTF2F2	http://www.ncbi.nlm.nih.gov/gene/2963	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008340	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	GTF2H1	http://www.ncbi.nlm.nih.gov/gene/2965	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008341	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	HDDC2	http://www.ncbi.nlm.nih.gov/gene/51020	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008342	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	HECTD1	http://www.ncbi.nlm.nih.gov/gene/25831	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008343	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	HELLS	http://www.ncbi.nlm.nih.gov/gene/3070	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008344	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	HMGXB4	http://www.ncbi.nlm.nih.gov/gene/10042	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008345	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	HNRNPU	http://www.ncbi.nlm.nih.gov/gene/3192	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008346	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	HS2ST1	http://www.ncbi.nlm.nih.gov/gene/9653	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008347	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	IDE	http://www.ncbi.nlm.nih.gov/gene/3416	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008348	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	IL16	http://www.ncbi.nlm.nih.gov/gene/3603	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008349	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	IL6ST	http://www.ncbi.nlm.nih.gov/gene/3572	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008350	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	IPO7	http://www.ncbi.nlm.nih.gov/gene/10527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008351	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	IRF4	http://www.ncbi.nlm.nih.gov/gene/3662	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008352	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	KBTBD11	http://www.ncbi.nlm.nih.gov/gene/9920	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008353	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	KCNK2	http://www.ncbi.nlm.nih.gov/gene/3776	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008354	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	KDM5A	http://www.ncbi.nlm.nih.gov/gene/5927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008355	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	KIAA1012	http://www.ncbi.nlm.nih.gov/gene/22878	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008356	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	KIAA2018	http://www.ncbi.nlm.nih.gov/gene/205717	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008357	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	KLF12	http://www.ncbi.nlm.nih.gov/gene/11278	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008358	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	KLHDC10	http://www.ncbi.nlm.nih.gov/gene/23008	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008359	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	KLHDC2	http://www.ncbi.nlm.nih.gov/gene/23588	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008360	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	KLHL18	http://www.ncbi.nlm.nih.gov/gene/23276	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008361	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	KPNA1	http://www.ncbi.nlm.nih.gov/gene/3836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008362	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	KTELC1	http://www.ncbi.nlm.nih.gov/gene/56983	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008363	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	LBR	http://www.ncbi.nlm.nih.gov/gene/3930	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008364	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	LRRFIP1	http://www.ncbi.nlm.nih.gov/gene/9208	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008365	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	LYN	http://www.ncbi.nlm.nih.gov/gene/4067	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008366	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	LYPLA1	http://www.ncbi.nlm.nih.gov/gene/10434	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008367	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	LYSMD1	http://www.ncbi.nlm.nih.gov/gene/388695	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008368	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	LZIC	http://www.ncbi.nlm.nih.gov/gene/84328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008369	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MAFK	http://www.ncbi.nlm.nih.gov/gene/7975	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008370	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MAP3K7IP3	http://www.ncbi.nlm.nih.gov/gene/257397 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008371	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MAP7D2	http://www.ncbi.nlm.nih.gov/gene/256714	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008372	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MBP	http://www.ncbi.nlm.nih.gov/gene/4155	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008373	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MBTPS2	http://www.ncbi.nlm.nih.gov/gene/51360	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008374	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MDM2	http://www.ncbi.nlm.nih.gov/gene/4193	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008375	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MECP2	http://www.ncbi.nlm.nih.gov/gene/4204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008376	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MKL2	http://www.ncbi.nlm.nih.gov/gene/57496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008377	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MKRN1	http://www.ncbi.nlm.nih.gov/gene/23608	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008378	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MLL	http://www.ncbi.nlm.nih.gov/gene/4297	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008379	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MLLT10	http://www.ncbi.nlm.nih.gov/gene/8028	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008380	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MMGT1	http://www.ncbi.nlm.nih.gov/gene/93380	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008381	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MPP6	http://www.ncbi.nlm.nih.gov/gene/51678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008382	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MPPE1	http://www.ncbi.nlm.nih.gov/gene/65258	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008383	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MTPN	http://www.ncbi.nlm.nih.gov/gene/767558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008384	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MTUS1	http://www.ncbi.nlm.nih.gov/gene/57509	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008385	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	MTX3	http://www.ncbi.nlm.nih.gov/gene/345778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008386	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	NCOA3	http://www.ncbi.nlm.nih.gov/gene/8202	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008387	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	NCOR1	http://www.ncbi.nlm.nih.gov/gene/9611	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008388	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	NDFIP2	http://www.ncbi.nlm.nih.gov/gene/54602	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008389	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	NFAT5	http://www.ncbi.nlm.nih.gov/gene/10725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008390	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	NFE2L2	http://www.ncbi.nlm.nih.gov/gene/4780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008391	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	NHLRC2	http://www.ncbi.nlm.nih.gov/gene/374354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008392	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	NMI	http://www.ncbi.nlm.nih.gov/gene/9111	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008393	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	NR3C1	http://www.ncbi.nlm.nih.gov/gene/2908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008394	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	NT5DC1	http://www.ncbi.nlm.nih.gov/gene/221294	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008395	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	NUDT5	http://www.ncbi.nlm.nih.gov/gene/11164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008396	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	NUP155	http://www.ncbi.nlm.nih.gov/gene/9631	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008397	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	NUP205	http://www.ncbi.nlm.nih.gov/gene/23165	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008398	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	NUP43	http://www.ncbi.nlm.nih.gov/gene/348995	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008399	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	NUP50	http://www.ncbi.nlm.nih.gov/gene/10762	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008400	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	OGT	http://www.ncbi.nlm.nih.gov/gene/8473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008401	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PABPC4L	http://www.ncbi.nlm.nih.gov/gene/132430	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008402	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PACRGL	http://www.ncbi.nlm.nih.gov/gene/133015	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008403	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PAFAH1B1	http://www.ncbi.nlm.nih.gov/gene/5048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008404	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PBRM1	http://www.ncbi.nlm.nih.gov/gene/55193	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008405	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PDE4D	http://www.ncbi.nlm.nih.gov/gene/5144	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008406	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PDE7A	http://www.ncbi.nlm.nih.gov/gene/5150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008407	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PDPK1	http://www.ncbi.nlm.nih.gov/gene/5170	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008408	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PEX11B	http://www.ncbi.nlm.nih.gov/gene/8799	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008409	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PGRMC2	http://www.ncbi.nlm.nih.gov/gene/10424	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008410	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PHF3	http://www.ncbi.nlm.nih.gov/gene/23469	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008411	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PIP5K1C	http://www.ncbi.nlm.nih.gov/gene/23396	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008412	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PLCXD2	http://www.ncbi.nlm.nih.gov/gene/90102	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008413	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PLCXD3	http://www.ncbi.nlm.nih.gov/gene/345557	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008414	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PLD1	http://www.ncbi.nlm.nih.gov/gene/5337	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008415	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PLS3	http://www.ncbi.nlm.nih.gov/gene/5358	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008416	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PNPO	http://www.ncbi.nlm.nih.gov/gene/55163	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008417	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	POLR2H	http://www.ncbi.nlm.nih.gov/gene/5437	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008418	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	POLS	http://www.ncbi.nlm.nih.gov/gene/11044 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008419	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008420	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PPM1K	http://www.ncbi.nlm.nih.gov/gene/152926	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008421	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PPP2CA	http://www.ncbi.nlm.nih.gov/gene/5515	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008422	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PRDM15	http://www.ncbi.nlm.nih.gov/gene/63977	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008423	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PTPRJ	http://www.ncbi.nlm.nih.gov/gene/5795	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008424	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	PUM2	http://www.ncbi.nlm.nih.gov/gene/23369	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008425	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	RAB8A	http://www.ncbi.nlm.nih.gov/gene/4218	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008426	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	RABEP1	http://www.ncbi.nlm.nih.gov/gene/9135	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008427	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	RAD21	http://www.ncbi.nlm.nih.gov/gene/5885	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008428	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	RAD23B	http://www.ncbi.nlm.nih.gov/gene/5887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008429	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	RANBP9	http://www.ncbi.nlm.nih.gov/gene/10048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008430	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	RBM22	http://www.ncbi.nlm.nih.gov/gene/55696	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008431	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	RBM39	http://www.ncbi.nlm.nih.gov/gene/643167	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008432	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	RBPSUH	http://www.ncbi.nlm.nih.gov/gene/3516	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008433	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	RELL1	http://www.ncbi.nlm.nih.gov/gene/768211	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008434	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	REPIN1	http://www.ncbi.nlm.nih.gov/gene/29803	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008435	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	RFXAP	http://www.ncbi.nlm.nih.gov/gene/5994	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008436	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	RIF1	http://www.ncbi.nlm.nih.gov/gene/55183	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008437	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008438	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	RPE	http://www.ncbi.nlm.nih.gov/gene/729020	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008439	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	RPL7L1	http://www.ncbi.nlm.nih.gov/gene/285855	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008440	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	RYBP	http://www.ncbi.nlm.nih.gov/gene/23429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008441	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SCARB2	http://www.ncbi.nlm.nih.gov/gene/950	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008442	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SENP8	http://www.ncbi.nlm.nih.gov/gene/123228	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008443	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SERP1	http://www.ncbi.nlm.nih.gov/gene/27230	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008444	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SF3A3	http://www.ncbi.nlm.nih.gov/gene/10946	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008445	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SFRS11	http://www.ncbi.nlm.nih.gov/gene/9295	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008446	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SGK3	http://www.ncbi.nlm.nih.gov/gene/23678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008447	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SH3BP2	http://www.ncbi.nlm.nih.gov/gene/6452	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008448	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SLC22A5	http://www.ncbi.nlm.nih.gov/gene/6584	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008449	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SLTM	http://www.ncbi.nlm.nih.gov/gene/79811	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008450	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SMC3	http://www.ncbi.nlm.nih.gov/gene/9126	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008451	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SNTB2	http://www.ncbi.nlm.nih.gov/gene/6645	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008452	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SOCS5	http://www.ncbi.nlm.nih.gov/gene/9655	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008453	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SOCS6	http://www.ncbi.nlm.nih.gov/gene/9306	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008454	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SOX13	http://www.ncbi.nlm.nih.gov/gene/9580	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008455	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SPAG1	http://www.ncbi.nlm.nih.gov/gene/6674	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008456	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SPAG16	http://www.ncbi.nlm.nih.gov/gene/79582	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008457	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	STARD4	http://www.ncbi.nlm.nih.gov/gene/134429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008458	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	STK17A	http://www.ncbi.nlm.nih.gov/gene/9263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008459	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	STRN	http://www.ncbi.nlm.nih.gov/gene/6801	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008460	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	STX12	http://www.ncbi.nlm.nih.gov/gene/23673	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008461	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	SUMO3	http://www.ncbi.nlm.nih.gov/gene/285829	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008462	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TANC1	http://www.ncbi.nlm.nih.gov/gene/85461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008463	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TANC2	http://www.ncbi.nlm.nih.gov/gene/26115	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008464	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TCF4	http://www.ncbi.nlm.nih.gov/gene/6925	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008465	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TET3	http://www.ncbi.nlm.nih.gov/gene/200424	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008466	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TFAP4	http://www.ncbi.nlm.nih.gov/gene/7023	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008467	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TGIF2	http://www.ncbi.nlm.nih.gov/gene/60436	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008468	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	THAP1	http://www.ncbi.nlm.nih.gov/gene/55145	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008469	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TMEM181	http://www.ncbi.nlm.nih.gov/gene/57583	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008470	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TMEM192	http://www.ncbi.nlm.nih.gov/gene/201931	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008471	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TMEM48	http://www.ncbi.nlm.nih.gov/gene/55706	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008472	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TNFRSF10B	http://www.ncbi.nlm.nih.gov/gene/8795	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008473	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TPO	http://www.ncbi.nlm.nih.gov/gene/7173	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008474	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TRMT61B	http://www.ncbi.nlm.nih.gov/gene/55006	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008475	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TSHZ1	http://www.ncbi.nlm.nih.gov/gene/10194	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008476	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TSR1	http://www.ncbi.nlm.nih.gov/gene/55720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008477	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TTC26	http://www.ncbi.nlm.nih.gov/gene/79989	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008478	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TUBA1B	http://www.ncbi.nlm.nih.gov/gene/10376	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008479	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	TUBA1C	http://www.ncbi.nlm.nih.gov/gene/84790	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008480	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	UBA5	http://www.ncbi.nlm.nih.gov/gene/79876	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008481	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	UBE2D1	http://www.ncbi.nlm.nih.gov/gene/7321	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008482	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	UBE2F	http://www.ncbi.nlm.nih.gov/gene/140739	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008483	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	UBE2K	http://www.ncbi.nlm.nih.gov/gene/3093	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008484	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	UFM1	http://www.ncbi.nlm.nih.gov/gene/51569	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008485	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	UNC119B	http://www.ncbi.nlm.nih.gov/gene/84747	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008486	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	USP3	http://www.ncbi.nlm.nih.gov/gene/9960	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008487	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	USP33	http://www.ncbi.nlm.nih.gov/gene/23032	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008488	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	UTP15	http://www.ncbi.nlm.nih.gov/gene/84135	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008489	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	VANGL1	http://www.ncbi.nlm.nih.gov/gene/81839	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008490	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	VEZT	http://www.ncbi.nlm.nih.gov/gene/55591	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008491	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	WASL	http://www.ncbi.nlm.nih.gov/gene/8976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008492	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	WBP11	http://www.ncbi.nlm.nih.gov/gene/51729	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008493	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	XPO1	http://www.ncbi.nlm.nih.gov/gene/7514	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008494	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	YIPF5	http://www.ncbi.nlm.nih.gov/gene/81555	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008495	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	YY1	http://www.ncbi.nlm.nih.gov/gene/7528	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008496	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZBTB39	http://www.ncbi.nlm.nih.gov/gene/9880	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008497	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZC3H12A	http://www.ncbi.nlm.nih.gov/gene/80149	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008498	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZFP36L2	http://www.ncbi.nlm.nih.gov/gene/678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008499	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZFP91	http://www.ncbi.nlm.nih.gov/gene/386607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008500	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZFYVE20	http://www.ncbi.nlm.nih.gov/gene/64145	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008501	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZIC2	http://www.ncbi.nlm.nih.gov/gene/7546	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008502	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZMYM2	http://www.ncbi.nlm.nih.gov/gene/7750	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008503	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZNF124	http://www.ncbi.nlm.nih.gov/gene/7678	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008504	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZNF217	http://www.ncbi.nlm.nih.gov/gene/7764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008505	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZNF238	http://www.ncbi.nlm.nih.gov/gene/10472	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008506	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZNF367	http://www.ncbi.nlm.nih.gov/gene/195828	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008507	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZNF426	http://www.ncbi.nlm.nih.gov/gene/79088	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008508	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZNF498	http://www.ncbi.nlm.nih.gov/gene/221785	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008509	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZNF517	http://www.ncbi.nlm.nih.gov/gene/340385	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008510	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZNF678	http://www.ncbi.nlm.nih.gov/gene/339500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008511	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZNF740	http://www.ncbi.nlm.nih.gov/gene/283337	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008512	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZNF792	http://www.ncbi.nlm.nih.gov/gene/126375	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008513	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC-3	-	Host	mRNA	ZNF805	http://www.ncbi.nlm.nih.gov/gene/390980	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008514	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC3	-	Host	mRNA	CDKN1A/p21	http://www.ncbi.nlm.nih.gov/gene/1026 	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00008515	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC3	-	Host	mRNA	NFKBIA	http://www.ncbi.nlm.nih.gov/gene/4792	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00008516	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BC3	-	Host	mRNA	RAD21	http://www.ncbi.nlm.nih.gov/gene/5885	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00008517	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	APOM	http://www.ncbi.nlm.nih.gov/gene/55937	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008518	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	ARID1A	http://www.ncbi.nlm.nih.gov/gene/8289	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008519	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	BCL11A	http://www.ncbi.nlm.nih.gov/gene/53335	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008520	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	CAST	http://www.ncbi.nlm.nih.gov/gene/831	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008521	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008522	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	CDK5R1	http://www.ncbi.nlm.nih.gov/gene/8851	-	PAR-CLIP.	22100165	Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008523	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	CNP	http://www.ncbi.nlm.nih.gov/gene/1267	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008524	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	COMMD7	http://www.ncbi.nlm.nih.gov/gene/149951	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008525	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	COX5B	http://www.ncbi.nlm.nih.gov/gene/1329	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008526	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	DCBLD2	http://www.ncbi.nlm.nih.gov/gene/131566	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008527	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	DDX47	http://www.ncbi.nlm.nih.gov/gene/51202	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008528	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	DUSP16	http://www.ncbi.nlm.nih.gov/gene/80824	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008529	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	E2F7	http://www.ncbi.nlm.nih.gov/gene/144455	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008530	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	EIF2C4	http://www.ncbi.nlm.nih.gov/gene/192670	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008531	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	EPB41L2	http://www.ncbi.nlm.nih.gov/gene/2037	-	PAR-CLIP.	22100165	Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008532	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	EPN2	http://www.ncbi.nlm.nih.gov/gene/22905	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008533	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	GTF2F2	http://www.ncbi.nlm.nih.gov/gene/2963	-	PAR-CLIP.	22100165	Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008534	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	GYPE	http://www.ncbi.nlm.nih.gov/gene/2996	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008535	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	IL6ST	http://www.ncbi.nlm.nih.gov/gene/3572	-	PAR-CLIP.	22100165	Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008536	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	KLF12	http://www.ncbi.nlm.nih.gov/gene/11278	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008537	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	MAFK	http://www.ncbi.nlm.nih.gov/gene/7975	-	PAR-CLIP.	22100165	Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008538	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	MEF2C	http://www.ncbi.nlm.nih.gov/gene/4208	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008539	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	NCOA3	http://www.ncbi.nlm.nih.gov/gene/8202	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008540	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	NDFIP1	http://www.ncbi.nlm.nih.gov/gene/80762	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008541	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	NFE2L2	http://www.ncbi.nlm.nih.gov/gene/4780	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008542	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	NMI	http://www.ncbi.nlm.nih.gov/gene/9111	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008543	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	NR1D2	http://www.ncbi.nlm.nih.gov/gene/9975	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008544	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	NUP43	http://www.ncbi.nlm.nih.gov/gene/348995	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008545	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	PDE7A	http://www.ncbi.nlm.nih.gov/gene/5150	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008546	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	PEX11B	http://www.ncbi.nlm.nih.gov/gene/8799	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008547	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	PPP2CA	http://www.ncbi.nlm.nih.gov/gene/5515	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008548	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	PSAT1	http://www.ncbi.nlm.nih.gov/gene/137133	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008549	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	PTPRJ	http://www.ncbi.nlm.nih.gov/gene/5795	-	PAR-CLIP.	22100165	Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008550	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	RABL5	http://www.ncbi.nlm.nih.gov/gene/64792	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008551	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	RAD21	http://www.ncbi.nlm.nih.gov/gene/5885	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008552	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	SLC22A5	http://www.ncbi.nlm.nih.gov/gene/6584	-	PAR-CLIP.	22100165	Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008553	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	SNN	http://www.ncbi.nlm.nih.gov/gene/8303	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008554	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	TCF4	http://www.ncbi.nlm.nih.gov/gene/6925	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008555	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	TFAP4	http://www.ncbi.nlm.nih.gov/gene/7023	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008556	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	TRIO	http://www.ncbi.nlm.nih.gov/gene/7204	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008557	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	UBL3	http://www.ncbi.nlm.nih.gov/gene/5412	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008558	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	USP33	http://www.ncbi.nlm.nih.gov/gene/23032	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008559	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	YY1	http://www.ncbi.nlm.nih.gov/gene/7528	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.Table S10D Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008560	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	ZHX3	http://www.ncbi.nlm.nih.gov/gene/23051	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008561	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	BJAB/miR-K1 cells	-	Host	mRNA	ZNF148	http://www.ncbi.nlm.nih.gov/gene/7707	-	PAR-CLIP.	22100165	Table S10A Genes that contribute to the enrichments of PAR-CLIP targets of miR-K1 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K1 cells.
VHID00008562	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	Protein	BCL11A	http://www.ncbi.nlm.nih.gov/gene/53335	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00008563	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	Protein	CDKN1A(CDKN1A/p21)	http://www.ncbi.nlm.nih.gov/gene/1026	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00008564	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	Protein	MAF	http://www.ncbi.nlm.nih.gov/gene/4094	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00008565	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	Protein	MAF1	http://www.ncbi.nlm.nih.gov/gene/84232	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00008566	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	Protein	NFKBIA	http://www.ncbi.nlm.nih.gov/gene/4792	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00008567	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	Protein	NMI	http://www.ncbi.nlm.nih.gov/gene/9111	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00008568	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	Protein	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00008569	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	Protein	WEE1	http://www.ncbi.nlm.nih.gov/gene/7465	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00008570	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00008571	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	mRNA	CDKN1A	http://www.ncbi.nlm.nih.gov/gene/1026	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00008572	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	mRNA	RAD21	http://www.ncbi.nlm.nih.gov/gene/5885	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00008573	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	mRNA	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VHID00008574	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	293 Cells	-	Host	Protein	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	Luciferase de-repression assay.	17500590	We performed luciferase de-repression assays by co-transfection of the THBS1 3'UTR reporter and 2'OMe RNAs specific to individual KSHV miRNAs. Our results demonstrate that THBS1 is targeted by multiple KSHV miRNAs; in particular, miR-K12-1, miR-K12-3-3p, miR-K12-6-3p, and miR-K12-11 lead to strong de-repression of the reporter.
VHID00008575	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	DG-75-K10/12 cells	-	Host	Protein	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	Downregulation	Northern blot analysis, Real-time PCR, Luciferase assays, Small RNA cloning and sequencing, Western blot analysis.	22174674	We found that three KSHV miRNAs, miR-K12-1, 3 and 4-3p, were responsible for the targeting of Casp3.Potential cellular targets that were significantly down-regulated upon KSHV miRNAs expression were identified by microarray profiling.
VHID00008576	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	HEK293 cells	-	Host	Protein	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	Luciferase assays,quantitative PCR and western blotting.	22174674	we validated by luciferase reporter assays, quantitative PCR and western blotting caspase 3 (Casp3), a critical factor for the control of apoptosis. Using site-directed mutagenesis, we found that three KSHV miRNAs, miR-K12-1, 3 and 4-3p, were responsible for the targeting of Casp3. .
VHID00008577	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	Lymphatic endothelial cells	-	Host	Protein	MAF	http://www.ncbi.nlm.nih.gov/gene/4094	Downregulation	qPCR and qRT-PCR, Western blotting, Luciferase reporter assays.	20080955	Site-directed mutagenesis of KSHV miRNA predicted target sites in the MAF 3'UTR abolished silencing, confirming that miR-K12-1, miR-K12-6-5p, and miR-K12-11 regulate MAF by interacting with the 3'UTR.
VHID00008578	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	Lymphocytes	-	Host	Protein	CDKN1A(p21)	http://www.ncbi.nlm.nih.gov/gene/1026	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	miR-K12-1 inhibition of p21 and NFKB inhibitor IkappaBalpha.
VHID00008579	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	Lymphocytes	-	Host	Protein	IkappaBalpha(IKBA)	http://www.ncbi.nlm.nih.gov/gene/4790	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	miR-K12-1 inhibition of p21 and NFKB inhibitor IkappaBalpha.
VHID00008580	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	Lymphocytes	-	Host	Protein	MAF	http://www.ncbi.nlm.nih.gov/gene/4094	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	miR-K12-1,-6, and -11 decrease of MAF(musculoaponeurotic fibrosarcoma oncogene  homolog), K12-4-5p targeting retinoblastoma(Rb)-like protein 2(Rbl2).
VHID00008581	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	Lymphocytes	-	Host	Protein	NFKB1(NFKB)	http://www.ncbi.nlm.nih.gov/gene/4790	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	miR-K12-1 inhibition of p21 and NFKB inhibitor IkappaBalpha.
VHID00008582	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(miR-K12-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	Lymphocytes	-	Host	Protein	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	KSHV miR-K12-1, miR-K12-3-3p,  miR-K12-6-3p, and miR-K12-11 reduce the expression  of THBS1(thrombospondin 1) by interaction with the  THBS1 4' UTR.
VHID00008583	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(mir-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	mRNA	IkappaBalpha(IKBA)	http://www.ncbi.nlm.nih.gov/gene/4792	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VHID00008584	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(mir-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Host	mRNA	P21	http://www.ncbi.nlm.nih.gov/gene/644914	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VHID00008585	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(mir-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	CDKN1A	http://www.ncbi.nlm.nih.gov/gene/1026	-	3'UTR  indicator assays ,RIP-CHIP.	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00008586	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(mir-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	NFKBIA	http://www.ncbi.nlm.nih.gov/gene/4792	-	3'UTR  indicator assays ,RIP-CHIP.	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00008587	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1(mir-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	RAD21	http://www.ncbi.nlm.nih.gov/gene/5885	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00008588	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	PEL cells and endothelial cells	-	Host	Protein	TGFBR2(TGFbeta-RII)	http://www.ncbi.nlm.nih.gov/gene/7048	Downregulation	Plasmids and miR mimics, Immunofluorescence assay, Western-blotting, RT-qPCR, Luciferase reporter assay, Apoptosis assay.	22915806	KSHV miR-K10 variants inhibit TGF-beta signaling by targeting TGF-beta type II receptor (TbetaRII). A suppressor of the miRs sensitizes latent KSHV-infected PEL cells to TGF-beta and induces apoptosis. These results indicate that miR-K10 variants manipulate the TGF-beta pathway to confer cells with resistance to the growth-inhibitory effect of TGF-beta. Thus, KSHV miRs might target the tumor-suppressive TGF-beta pathway to promote viral latency and contribute to malignant cellular transformation.
VHID00008589	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	-	-	Host	Protein	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00008590	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	-	-	Host	Protein	TNFRSF12A	http://www.ncbi.nlm.nih.gov/gene/51330	-	Bio-Plex assays for IL-8 and MCP-1, Annexin V and TUNEL assays, De novo infections, Luciferase assays, Quantitative RT-PCR assays for cytokine expression, Western blot analysis, Statistical analysis, Caspase activation assay.	20844036	TWEAKR (also known as Fn14, TNFRSF12A, or CD266).Results from luciferase assays with reporter plasmids containing the 3' untranslated region (UTR) of TWEAKR suggest a targeting of TWEAKR by miR-K10a.The expression of TWEAKR was downregulated in cells transfected with miR-K10a as well as during de novo KSHV infection.
VHID00008591	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	MARCH2		-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008592	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ADPRHL1	http://www.ncbi.nlm.nih.gov/gene/113622	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008593	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	AK3L1	http://www.ncbi.nlm.nih.gov/gene/645619	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008594	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ALG13	http://www.ncbi.nlm.nih.gov/gene/79868	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008595	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	AMD1	http://www.ncbi.nlm.nih.gov/gene/262	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008596	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ANKFY1	http://www.ncbi.nlm.nih.gov/gene/51479	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008597	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ANLN	http://www.ncbi.nlm.nih.gov/gene/54443	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008598	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ANP32E	http://www.ncbi.nlm.nih.gov/gene/81611	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008599	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	APOLD1	http://www.ncbi.nlm.nih.gov/gene/81575	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008600	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	APPBP2	http://www.ncbi.nlm.nih.gov/gene/10513	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008601	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ARHGAP5	http://www.ncbi.nlm.nih.gov/gene/394	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008602	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ARHGDIB	http://www.ncbi.nlm.nih.gov/gene/397	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008603	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ARL8A	http://www.ncbi.nlm.nih.gov/gene/127829	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008604	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ASH1L	http://www.ncbi.nlm.nih.gov/gene/55870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008605	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ATF7	http://www.ncbi.nlm.nih.gov/gene/11016	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008606	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ATP2B1	http://www.ncbi.nlm.nih.gov/gene/490	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008607	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ATPBD4	http://www.ncbi.nlm.nih.gov/gene/89978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008608	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ATXN1	http://www.ncbi.nlm.nih.gov/gene/6310	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008609	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	AVL9	http://www.ncbi.nlm.nih.gov/gene/23080	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008610	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	BAG3	http://www.ncbi.nlm.nih.gov/gene/9531	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008611	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	BRCA1	http://www.ncbi.nlm.nih.gov/gene/672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008612	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	C12orf5	http://www.ncbi.nlm.nih.gov/gene/57103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008613	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	C12orf73	http://www.ncbi.nlm.nih.gov/gene/728568	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008614	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	C18orf10	http://www.ncbi.nlm.nih.gov/gene/25941	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008615	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	C18orf54	http://www.ncbi.nlm.nih.gov/gene/162681	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008616	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	C1orf9	http://www.ncbi.nlm.nih.gov/gene/51430	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008617	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	C8orf82	http://www.ncbi.nlm.nih.gov/gene/414919	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008618	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CAB39	http://www.ncbi.nlm.nih.gov/gene/51719	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008619	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CALCOCO2	http://www.ncbi.nlm.nih.gov/gene/10241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008620	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CALM3	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008621	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CBL	http://www.ncbi.nlm.nih.gov/gene/867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008622	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CCDC88A	http://www.ncbi.nlm.nih.gov/gene/55704	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008623	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CDC7	http://www.ncbi.nlm.nih.gov/gene/8317	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008624	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CDKN1B	http://www.ncbi.nlm.nih.gov/gene/1027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008625	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CEP70	http://www.ncbi.nlm.nih.gov/gene/80321	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008626	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CETN3	http://www.ncbi.nlm.nih.gov/gene/1070	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008627	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CLEC16A	http://www.ncbi.nlm.nih.gov/gene/23274	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008628	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CLTC	http://www.ncbi.nlm.nih.gov/gene/1213	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008629	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CMTM4	http://www.ncbi.nlm.nih.gov/gene/146223	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008630	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CREBL2	http://www.ncbi.nlm.nih.gov/gene/1389	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008631	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CTNNA1	http://www.ncbi.nlm.nih.gov/gene/1495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008632	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CTNNB1	http://www.ncbi.nlm.nih.gov/gene/1499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008633	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CTNND1	http://www.ncbi.nlm.nih.gov/gene/1500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008634	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	CUX1	http://www.ncbi.nlm.nih.gov/gene/1523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008635	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	DAPP1	http://www.ncbi.nlm.nih.gov/gene/27071	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008636	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	DDX6	http://www.ncbi.nlm.nih.gov/gene/1656	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008637	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	DHRS7B	http://www.ncbi.nlm.nih.gov/gene/25979	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008638	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	DLG5	http://www.ncbi.nlm.nih.gov/gene/9231	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008639	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	DMTF1	http://www.ncbi.nlm.nih.gov/gene/9988	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008640	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	DNAJB4	http://www.ncbi.nlm.nih.gov/gene/11080	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008641	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	DPP8	http://www.ncbi.nlm.nih.gov/gene/54878	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008642	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	DSTN	http://www.ncbi.nlm.nih.gov/gene/11034	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008643	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	DSTYK	http://www.ncbi.nlm.nih.gov/gene/25778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008644	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	DVL1	http://www.ncbi.nlm.nih.gov/gene/1855	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008645	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	DYNC1LI2	http://www.ncbi.nlm.nih.gov/gene/1783	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008646	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	E2F7	http://www.ncbi.nlm.nih.gov/gene/144455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008647	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ECT2	http://www.ncbi.nlm.nih.gov/gene/1894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008648	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	EEF2	http://www.ncbi.nlm.nih.gov/gene/1938	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008649	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	EIF2S1	http://www.ncbi.nlm.nih.gov/gene/1965	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008650	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	EIF4A1	http://www.ncbi.nlm.nih.gov/gene/728698	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008651	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	EIF5	http://www.ncbi.nlm.nih.gov/gene/1983	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008652	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ERLIN1	http://www.ncbi.nlm.nih.gov/gene/10613	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008653	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	FAM103A1	http://www.ncbi.nlm.nih.gov/gene/83640	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008654	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	FAM171B	http://www.ncbi.nlm.nih.gov/gene/165215	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008655	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	FAM63B	http://www.ncbi.nlm.nih.gov/gene/54629	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008656	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	FNIP2	http://www.ncbi.nlm.nih.gov/gene/57600	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008657	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	FOXP1	http://www.ncbi.nlm.nih.gov/gene/27086	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008658	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	FOXP2	http://www.ncbi.nlm.nih.gov/gene/93986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008659	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	FRS2	http://www.ncbi.nlm.nih.gov/gene/10818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008660	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	FTSJD1	http://www.ncbi.nlm.nih.gov/gene/55783	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008661	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	GBP3	http://www.ncbi.nlm.nih.gov/gene/2635	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008662	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	GCNT2	http://www.ncbi.nlm.nih.gov/gene/2651	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008663	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	GLRX	http://www.ncbi.nlm.nih.gov/gene/2745	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008664	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	GMFB	http://www.ncbi.nlm.nih.gov/gene/2764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008665	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	GMPPB	http://www.ncbi.nlm.nih.gov/gene/29925	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008666	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	GPR107	http://www.ncbi.nlm.nih.gov/gene/57720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008667	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	GPRIN3	http://www.ncbi.nlm.nih.gov/gene/285513	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008668	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	GRLF1	http://www.ncbi.nlm.nih.gov/gene/2909	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008669	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	HADHB	http://www.ncbi.nlm.nih.gov/gene/3032	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008670	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	HBP1	http://www.ncbi.nlm.nih.gov/gene/26959	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008671	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	HDLBP	http://www.ncbi.nlm.nih.gov/gene/3069	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008672	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	HELLS	http://www.ncbi.nlm.nih.gov/gene/3070	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008673	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	HGF	http://www.ncbi.nlm.nih.gov/gene/3082	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008674	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	HIAT1	http://www.ncbi.nlm.nih.gov/gene/64645	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008675	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	HNRNPK	http://www.ncbi.nlm.nih.gov/gene/3190	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008676	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	HOXB7	http://www.ncbi.nlm.nih.gov/gene/3217	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008677	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	HSBP1	http://www.ncbi.nlm.nih.gov/gene/3281	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008678	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	HSPA1B	http://www.ncbi.nlm.nih.gov/gene/3303	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008679	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	IFNGR2	http://www.ncbi.nlm.nih.gov/gene/3460	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008680	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	IFT140	http://www.ncbi.nlm.nih.gov/gene/9742	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008681	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	IGDCC4	http://www.ncbi.nlm.nih.gov/gene/57722	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008682	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	IGF2BP3	http://www.ncbi.nlm.nih.gov/gene/10643	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008683	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	INO80D	http://www.ncbi.nlm.nih.gov/gene/54891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008684	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	IPO9	http://www.ncbi.nlm.nih.gov/gene/55705	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008685	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	IQGAP3	http://www.ncbi.nlm.nih.gov/gene/128239	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008686	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ITSN1	http://www.ncbi.nlm.nih.gov/gene/6453	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008687	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	KBTBD2	http://www.ncbi.nlm.nih.gov/gene/25948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008688	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	KBTBD6	http://www.ncbi.nlm.nih.gov/gene/89890	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008689	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	KCTD9	http://www.ncbi.nlm.nih.gov/gene/642513	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008690	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	KDM3B	http://www.ncbi.nlm.nih.gov/gene/51780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008691	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	KDM5B	http://www.ncbi.nlm.nih.gov/gene/10765	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008692	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	KIAA0562	http://www.ncbi.nlm.nih.gov/gene/9731	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008693	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	KLHDC10	http://www.ncbi.nlm.nih.gov/gene/23008	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008694	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	KLHL8	http://www.ncbi.nlm.nih.gov/gene/57563	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008695	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	LAMP2	http://www.ncbi.nlm.nih.gov/gene/3920	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008696	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	LANCL1	http://www.ncbi.nlm.nih.gov/gene/10314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008697	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	LAPTM4A	http://www.ncbi.nlm.nih.gov/gene/9741	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008698	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	LCOR	http://www.ncbi.nlm.nih.gov/gene/84458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008699	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	LIX1L	http://www.ncbi.nlm.nih.gov/gene/128077	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008700	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	LMNB2	http://www.ncbi.nlm.nih.gov/gene/84823	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008701	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	LPGAT1	http://www.ncbi.nlm.nih.gov/gene/9926	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008702	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	LRRC8B	http://www.ncbi.nlm.nih.gov/gene/23507	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008703	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	MAML1	http://www.ncbi.nlm.nih.gov/gene/9794	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008704	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	MBTD1	http://www.ncbi.nlm.nih.gov/gene/54799	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008705	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	MBTPS2	http://www.ncbi.nlm.nih.gov/gene/51360	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008706	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	MEX3C	http://www.ncbi.nlm.nih.gov/gene/51320	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008707	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	MMADHC	http://www.ncbi.nlm.nih.gov/gene/27249	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008708	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	MRPL42	http://www.ncbi.nlm.nih.gov/gene/28977	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008709	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	MTFR1	http://www.ncbi.nlm.nih.gov/gene/9650	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008710	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	MTPN	http://www.ncbi.nlm.nih.gov/gene/767558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008711	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	MTX3	http://www.ncbi.nlm.nih.gov/gene/345778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008712	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	N4BP2L1	http://www.ncbi.nlm.nih.gov/gene/90634	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008713	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	NDUFC1	http://www.ncbi.nlm.nih.gov/gene/4717	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008714	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	NFIA	http://www.ncbi.nlm.nih.gov/gene/4774	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008715	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	NGRN	http://www.ncbi.nlm.nih.gov/gene/51335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008716	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	NHLRC2	http://www.ncbi.nlm.nih.gov/gene/374354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008717	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	NOTCH2NL	http://www.ncbi.nlm.nih.gov/gene/388677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008718	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	NSD1	http://www.ncbi.nlm.nih.gov/gene/64324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008719	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008720	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	OTUD4	http://www.ncbi.nlm.nih.gov/gene/54726	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008721	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PEX13	http://www.ncbi.nlm.nih.gov/gene/5194	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008722	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PGM3	http://www.ncbi.nlm.nih.gov/gene/5238	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008723	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PGRMC1	http://www.ncbi.nlm.nih.gov/gene/10857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008724	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PHC3	http://www.ncbi.nlm.nih.gov/gene/80012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008725	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PHF17	http://www.ncbi.nlm.nih.gov/gene/79960	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008726	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PIK3C2A	http://www.ncbi.nlm.nih.gov/gene/5286	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008727	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PIK3C2B	http://www.ncbi.nlm.nih.gov/gene/5287	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008728	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PIK3R3	http://www.ncbi.nlm.nih.gov/gene/8503	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008729	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PKN2	http://www.ncbi.nlm.nih.gov/gene/5586	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008730	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PMPCB	http://www.ncbi.nlm.nih.gov/gene/9512	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008731	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	POLI	http://www.ncbi.nlm.nih.gov/gene/11201	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008732	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	POMP	http://www.ncbi.nlm.nih.gov/gene/51371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008733	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008734	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PPIB	http://www.ncbi.nlm.nih.gov/gene/5479	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008735	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PPM1G	http://www.ncbi.nlm.nih.gov/gene/5496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008736	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PPP1R9A	http://www.ncbi.nlm.nih.gov/gene/55607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008737	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PRKAB2	http://www.ncbi.nlm.nih.gov/gene/5565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008738	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PRKDC	http://www.ncbi.nlm.nih.gov/gene/5591	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008739	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PROK2	http://www.ncbi.nlm.nih.gov/gene/60675	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008740	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PRPF40A	http://www.ncbi.nlm.nih.gov/gene/55660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008741	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PTPLAD1	http://www.ncbi.nlm.nih.gov/gene/51495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008742	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PTPN13	http://www.ncbi.nlm.nih.gov/gene/5783	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008743	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PXMP4	http://www.ncbi.nlm.nih.gov/gene/11264	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008744	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	PYROXD1	http://www.ncbi.nlm.nih.gov/gene/79912	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008745	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	RAB11FIP1	http://www.ncbi.nlm.nih.gov/gene/80223	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008746	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	RABGAP1L	http://www.ncbi.nlm.nih.gov/gene/9910	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008747	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	RABL3	http://www.ncbi.nlm.nih.gov/gene/285282	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008748	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	RALGPS2	http://www.ncbi.nlm.nih.gov/gene/55103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008749	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	RAPH1	http://www.ncbi.nlm.nih.gov/gene/65059	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008750	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	RBBP7	http://www.ncbi.nlm.nih.gov/gene/5931	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008751	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	RCHY1	http://www.ncbi.nlm.nih.gov/gene/25898	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008752	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	RDX	http://www.ncbi.nlm.nih.gov/gene/5962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008753	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	REV1	http://www.ncbi.nlm.nih.gov/gene/51455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008754	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	RGL2	http://www.ncbi.nlm.nih.gov/gene/5863	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008755	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	RNF111	http://www.ncbi.nlm.nih.gov/gene/54778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008756	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	RPS6KA3	http://www.ncbi.nlm.nih.gov/gene/6197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008757	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	RSF1	http://www.ncbi.nlm.nih.gov/gene/51773	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008758	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	RUFY2	http://www.ncbi.nlm.nih.gov/gene/55680	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008759	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SBDS	http://www.ncbi.nlm.nih.gov/gene/155370	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008760	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SEC62	http://www.ncbi.nlm.nih.gov/gene/7095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008761	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SELT	http://www.ncbi.nlm.nih.gov/gene/51714	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008762	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SETD5	http://www.ncbi.nlm.nih.gov/gene/55209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008763	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SETD6	http://www.ncbi.nlm.nih.gov/gene/79918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008764	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SH3GL1	http://www.ncbi.nlm.nih.gov/gene/6455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008765	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SIAH1	http://www.ncbi.nlm.nih.gov/gene/6477	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008766	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SIKE1	http://www.ncbi.nlm.nih.gov/gene/80143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008767	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SLC11A2	http://www.ncbi.nlm.nih.gov/gene/4891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008768	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SLC23A2	http://www.ncbi.nlm.nih.gov/gene/9962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008769	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SLC30A7	http://www.ncbi.nlm.nih.gov/gene/148867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008770	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SLC41A1	http://www.ncbi.nlm.nih.gov/gene/254428	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008771	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SMAD4	http://www.ncbi.nlm.nih.gov/gene/4089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008772	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SNORD1C	http://www.ncbi.nlm.nih.gov/gene/677850	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008773	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SNX13	http://www.ncbi.nlm.nih.gov/gene/23161	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008774	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SOCS5	http://www.ncbi.nlm.nih.gov/gene/9655	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008775	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SOS1	http://www.ncbi.nlm.nih.gov/gene/6654	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008776	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SP100	http://www.ncbi.nlm.nih.gov/gene/6672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008777	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	SPAG9	http://www.ncbi.nlm.nih.gov/gene/9043	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008778	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	TAOK1	http://www.ncbi.nlm.nih.gov/gene/57551	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008779	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	TBC1D5	http://www.ncbi.nlm.nih.gov/gene/9779	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008780	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	TCF7L2	http://www.ncbi.nlm.nih.gov/gene/6934	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008781	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	TGIF2	http://www.ncbi.nlm.nih.gov/gene/60436	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008782	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	TMEM181	http://www.ncbi.nlm.nih.gov/gene/57583	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008783	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	TMEM192	http://www.ncbi.nlm.nih.gov/gene/201931	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008784	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	TMTC3	http://www.ncbi.nlm.nih.gov/gene/160418	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008785	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	TMX3	http://www.ncbi.nlm.nih.gov/gene/54495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008786	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	TNRC6B	http://www.ncbi.nlm.nih.gov/gene/23112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008787	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	TP53INP2	http://www.ncbi.nlm.nih.gov/gene/58476	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008788	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	TP53RK	http://www.ncbi.nlm.nih.gov/gene/112858	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008789	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	TRPS1	http://www.ncbi.nlm.nih.gov/gene/7227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008790	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	TRUB1	http://www.ncbi.nlm.nih.gov/gene/142940	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008791	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	TSC22D2	http://www.ncbi.nlm.nih.gov/gene/9819	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008792	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	TXLNB	http://www.ncbi.nlm.nih.gov/gene/167838	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008793	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	UBA6	http://www.ncbi.nlm.nih.gov/gene/55236	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008794	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	UBE2CBP	http://www.ncbi.nlm.nih.gov/gene/90025	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008795	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	UBN2	http://www.ncbi.nlm.nih.gov/gene/254048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008796	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	UBP1	http://www.ncbi.nlm.nih.gov/gene/7342	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008797	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	UBXN2B	http://www.ncbi.nlm.nih.gov/gene/137886	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008798	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	UBXN4	http://www.ncbi.nlm.nih.gov/gene/23190	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008799	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	USP31	http://www.ncbi.nlm.nih.gov/gene/57478	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008800	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	USP42	http://www.ncbi.nlm.nih.gov/gene/84132	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008801	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	USP8	http://www.ncbi.nlm.nih.gov/gene/9101	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008802	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	VDAC1	http://www.ncbi.nlm.nih.gov/gene/7416	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008803	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	VPS26A	http://www.ncbi.nlm.nih.gov/gene/9559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008804	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	VPS52	http://www.ncbi.nlm.nih.gov/gene/6293	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008805	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	WDR75	http://www.ncbi.nlm.nih.gov/gene/84128	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008806	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	WDR82	http://www.ncbi.nlm.nih.gov/gene/80335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008807	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	WHSC1	http://www.ncbi.nlm.nih.gov/gene/7468	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008808	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	WIPF2	http://www.ncbi.nlm.nih.gov/gene/147179	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008809	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	XPO4	http://www.ncbi.nlm.nih.gov/gene/64328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008810	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	YWHAG	http://www.ncbi.nlm.nih.gov/gene/7532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008811	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ZBTB42	http://www.ncbi.nlm.nih.gov/gene/100128927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008812	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ZBTB43	http://www.ncbi.nlm.nih.gov/gene/23099	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008813	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ZCCHC3	http://www.ncbi.nlm.nih.gov/gene/85364	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008814	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ZDHHC17	http://www.ncbi.nlm.nih.gov/gene/23390	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008815	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ZHX1	http://www.ncbi.nlm.nih.gov/gene/11244	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008816	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ZNF138	http://www.ncbi.nlm.nih.gov/gene/7697	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008817	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ZNF292	http://www.ncbi.nlm.nih.gov/gene/23036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008818	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ZNF451	http://www.ncbi.nlm.nih.gov/gene/26036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008819	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ZNF618	http://www.ncbi.nlm.nih.gov/gene/114991	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008820	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ZNF652	http://www.ncbi.nlm.nih.gov/gene/22834	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008821	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-1	-	Host	mRNA	ZNF776	http://www.ncbi.nlm.nih.gov/gene/284309	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008822	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	MARCH2		-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008823	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ACSS1	http://www.ncbi.nlm.nih.gov/gene/84532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008824	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ADPRHL1	http://www.ncbi.nlm.nih.gov/gene/113622	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008825	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	AK3L1	http://www.ncbi.nlm.nih.gov/gene/645619	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008826	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ALG13	http://www.ncbi.nlm.nih.gov/gene/79868	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008827	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ANLN	http://www.ncbi.nlm.nih.gov/gene/54443	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008828	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ANXA11	http://www.ncbi.nlm.nih.gov/gene/311	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008829	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	AP3M1	http://www.ncbi.nlm.nih.gov/gene/26985	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008830	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	APPBP2	http://www.ncbi.nlm.nih.gov/gene/10513	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008831	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ARL8A	http://www.ncbi.nlm.nih.gov/gene/127829	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008832	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ASH1L	http://www.ncbi.nlm.nih.gov/gene/55870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008833	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ATF7	http://www.ncbi.nlm.nih.gov/gene/11016	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008834	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ATP2B1	http://www.ncbi.nlm.nih.gov/gene/490	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008835	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ATPBD4	http://www.ncbi.nlm.nih.gov/gene/89978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008836	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ATRN	http://www.ncbi.nlm.nih.gov/gene/8455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008837	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	AVL9	http://www.ncbi.nlm.nih.gov/gene/23080	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008838	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	BAG3	http://www.ncbi.nlm.nih.gov/gene/9531	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008839	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	BRPF3	http://www.ncbi.nlm.nih.gov/gene/27154	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008840	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	C17orf45	http://www.ncbi.nlm.nih.gov/gene/125144 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008841	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	C18orf10	http://www.ncbi.nlm.nih.gov/gene/25941	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008842	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	C18orf54	http://www.ncbi.nlm.nih.gov/gene/162681	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008843	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	C19orf2	http://www.ncbi.nlm.nih.gov/gene/8725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008844	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	C9orf40	http://www.ncbi.nlm.nih.gov/gene/55071	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008845	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	CAB39	http://www.ncbi.nlm.nih.gov/gene/51719	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008846	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	CALM3	http://www.ncbi.nlm.nih.gov/gene/808	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008847	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	CBL	http://www.ncbi.nlm.nih.gov/gene/867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008848	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	CCDC34	http://www.ncbi.nlm.nih.gov/gene/91057	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008849	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	CCDC88A	http://www.ncbi.nlm.nih.gov/gene/55704	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008850	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	CDC7	http://www.ncbi.nlm.nih.gov/gene/8317	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008851	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	CDKN1B	http://www.ncbi.nlm.nih.gov/gene/1027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008852	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	CETN3	http://www.ncbi.nlm.nih.gov/gene/1070	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008853	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	CLEC16A	http://www.ncbi.nlm.nih.gov/gene/23274	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008854	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	CMTM4	http://www.ncbi.nlm.nih.gov/gene/146223	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008855	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	CREBL2	http://www.ncbi.nlm.nih.gov/gene/1389	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008856	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	CROT	http://www.ncbi.nlm.nih.gov/gene/54677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008857	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	CTNNB1	http://www.ncbi.nlm.nih.gov/gene/1499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008858	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	CTNND1	http://www.ncbi.nlm.nih.gov/gene/1500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008859	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	CUX1	http://www.ncbi.nlm.nih.gov/gene/1523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008860	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	DAPP1	http://www.ncbi.nlm.nih.gov/gene/27071	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008861	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	DDX56	http://www.ncbi.nlm.nih.gov/gene/54606	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008862	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	DHRS7B	http://www.ncbi.nlm.nih.gov/gene/25979	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008863	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	DLG5	http://www.ncbi.nlm.nih.gov/gene/9231	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008864	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	DMTF1	http://www.ncbi.nlm.nih.gov/gene/9988	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008865	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	DNAJB4	http://www.ncbi.nlm.nih.gov/gene/11080	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008866	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	DSTN	http://www.ncbi.nlm.nih.gov/gene/11034	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008867	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	DSTYK	http://www.ncbi.nlm.nih.gov/gene/25778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008868	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	DVL1	http://www.ncbi.nlm.nih.gov/gene/1855	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008869	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	DYNC1LI2	http://www.ncbi.nlm.nih.gov/gene/1783	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008870	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	DYNLT3	http://www.ncbi.nlm.nih.gov/gene/6990	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008871	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	E2F7	http://www.ncbi.nlm.nih.gov/gene/144455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008872	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ECT2	http://www.ncbi.nlm.nih.gov/gene/1894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008873	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	EEF2	http://www.ncbi.nlm.nih.gov/gene/1938	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008874	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	EIF4A1	http://www.ncbi.nlm.nih.gov/gene/728698	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008875	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	EIF5	http://www.ncbi.nlm.nih.gov/gene/1983	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008876	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ERLIN1	http://www.ncbi.nlm.nih.gov/gene/10613	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008877	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	FADS1	http://www.ncbi.nlm.nih.gov/gene/3992	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008878	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	FAM103A1	http://www.ncbi.nlm.nih.gov/gene/83640	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008879	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	FAM63B	http://www.ncbi.nlm.nih.gov/gene/54629	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008880	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	FOXO1	http://www.ncbi.nlm.nih.gov/gene/2308	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008881	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	FOXP2	http://www.ncbi.nlm.nih.gov/gene/93986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008882	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	FRS2	http://www.ncbi.nlm.nih.gov/gene/10818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008883	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	FUT4	http://www.ncbi.nlm.nih.gov/gene/2526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008884	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	GCNT2	http://www.ncbi.nlm.nih.gov/gene/2651	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008885	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	GLRX	http://www.ncbi.nlm.nih.gov/gene/2745	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008886	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	GMFB	http://www.ncbi.nlm.nih.gov/gene/2764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008887	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	GMPPB	http://www.ncbi.nlm.nih.gov/gene/29925	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008888	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	GPR107	http://www.ncbi.nlm.nih.gov/gene/57720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008889	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	GPRIN3	http://www.ncbi.nlm.nih.gov/gene/285513	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008890	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	HBP1	http://www.ncbi.nlm.nih.gov/gene/26959	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008891	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	HDLBP	http://www.ncbi.nlm.nih.gov/gene/3069	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008892	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	HELLS	http://www.ncbi.nlm.nih.gov/gene/3070	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008893	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	HSBP1	http://www.ncbi.nlm.nih.gov/gene/3281	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008894	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	IFIH1	http://www.ncbi.nlm.nih.gov/gene/64135	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008895	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	IFNGR2	http://www.ncbi.nlm.nih.gov/gene/3460	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008896	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	IGF1R	http://www.ncbi.nlm.nih.gov/gene/3480	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008897	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	IGF2BP3	http://www.ncbi.nlm.nih.gov/gene/10643	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008898	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	INO80D	http://www.ncbi.nlm.nih.gov/gene/54891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008899	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	IPO9	http://www.ncbi.nlm.nih.gov/gene/55705	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008900	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	IQGAP3	http://www.ncbi.nlm.nih.gov/gene/128239	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008901	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	IRAK4	http://www.ncbi.nlm.nih.gov/gene/51135	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008902	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ITSN1	http://www.ncbi.nlm.nih.gov/gene/6453	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008903	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	KBTBD2	http://www.ncbi.nlm.nih.gov/gene/25948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008904	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	KCTD9	http://www.ncbi.nlm.nih.gov/gene/642513	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008905	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	KDM3B	http://www.ncbi.nlm.nih.gov/gene/51780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008906	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	KDM5B	http://www.ncbi.nlm.nih.gov/gene/10765	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008907	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	KIAA0562	http://www.ncbi.nlm.nih.gov/gene/9731	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008908	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	KLHDC10	http://www.ncbi.nlm.nih.gov/gene/23008	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008909	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	KLHL8	http://www.ncbi.nlm.nih.gov/gene/57563	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008910	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	LAMP2	http://www.ncbi.nlm.nih.gov/gene/3920	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008911	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	LANCL1	http://www.ncbi.nlm.nih.gov/gene/10314	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008912	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	LAPTM4A	http://www.ncbi.nlm.nih.gov/gene/9741	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008913	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	LATS1	http://www.ncbi.nlm.nih.gov/gene/9113	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008914	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	LCOR	http://www.ncbi.nlm.nih.gov/gene/84458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008915	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	LIX1L	http://www.ncbi.nlm.nih.gov/gene/128077	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008916	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	LMNB2	http://www.ncbi.nlm.nih.gov/gene/84823	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008917	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	LRRC8B	http://www.ncbi.nlm.nih.gov/gene/23507	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008918	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	MMADHC	http://www.ncbi.nlm.nih.gov/gene/27249	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008919	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	MRPL42	http://www.ncbi.nlm.nih.gov/gene/28977	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008920	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	MT1E	http://www.ncbi.nlm.nih.gov/gene/4500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008921	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	MTFR1	http://www.ncbi.nlm.nih.gov/gene/9650	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008922	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	MTPN	http://www.ncbi.nlm.nih.gov/gene/767558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008923	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	MTX3	http://www.ncbi.nlm.nih.gov/gene/345778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008924	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	MYO10	http://www.ncbi.nlm.nih.gov/gene/4651	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008925	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	NAT13	http://www.ncbi.nlm.nih.gov/gene/80218 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008926	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	NDUFC1	http://www.ncbi.nlm.nih.gov/gene/4717	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008927	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	NGRN	http://www.ncbi.nlm.nih.gov/gene/51335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008928	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	NHLRC2	http://www.ncbi.nlm.nih.gov/gene/374354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008929	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	NSD1	http://www.ncbi.nlm.nih.gov/gene/64324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008930	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	NSF	http://www.ncbi.nlm.nih.gov/gene/4905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008931	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	NUDT15	http://www.ncbi.nlm.nih.gov/gene/55270	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008932	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008933	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PEX13	http://www.ncbi.nlm.nih.gov/gene/5194	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008934	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PGM3	http://www.ncbi.nlm.nih.gov/gene/5238	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008935	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PGRMC1	http://www.ncbi.nlm.nih.gov/gene/10857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008936	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PHACTR4	http://www.ncbi.nlm.nih.gov/gene/65979	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008937	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PKN2	http://www.ncbi.nlm.nih.gov/gene/5586	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008938	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PMPCB	http://www.ncbi.nlm.nih.gov/gene/9512	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008939	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PNLDC1	http://www.ncbi.nlm.nih.gov/gene/154197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008940	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	POLI	http://www.ncbi.nlm.nih.gov/gene/11201	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008941	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	POLR3E	http://www.ncbi.nlm.nih.gov/gene/55718	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008942	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	POLR3K	http://www.ncbi.nlm.nih.gov/gene/51728	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008943	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	POMP	http://www.ncbi.nlm.nih.gov/gene/51371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008944	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008945	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PPIF	http://www.ncbi.nlm.nih.gov/gene/10105	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008946	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PPM1G	http://www.ncbi.nlm.nih.gov/gene/5496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008947	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PRKAB2	http://www.ncbi.nlm.nih.gov/gene/5565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008948	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PRKDC	http://www.ncbi.nlm.nih.gov/gene/5591	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008949	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PROK2	http://www.ncbi.nlm.nih.gov/gene/60675	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008950	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PRPF40A	http://www.ncbi.nlm.nih.gov/gene/55660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008951	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PTPN1	http://www.ncbi.nlm.nih.gov/gene/5770	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008952	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PTPN13	http://www.ncbi.nlm.nih.gov/gene/5783	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008953	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PTPN2	http://www.ncbi.nlm.nih.gov/gene/5771	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008954	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PXMP4	http://www.ncbi.nlm.nih.gov/gene/11264	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008955	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	PYROXD1	http://www.ncbi.nlm.nih.gov/gene/79912	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008956	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	RAB11FIP1	http://www.ncbi.nlm.nih.gov/gene/80223	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008957	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	RABL3	http://www.ncbi.nlm.nih.gov/gene/285282	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008958	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	RAPH1	http://www.ncbi.nlm.nih.gov/gene/65059	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008959	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	RBBP7	http://www.ncbi.nlm.nih.gov/gene/5931	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008960	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	RBCK1	http://www.ncbi.nlm.nih.gov/gene/10616	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008961	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	RCHY1	http://www.ncbi.nlm.nih.gov/gene/25898	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008962	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	RDX	http://www.ncbi.nlm.nih.gov/gene/5962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008963	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	RGL2	http://www.ncbi.nlm.nih.gov/gene/5863	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008964	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	RPS6KA3	http://www.ncbi.nlm.nih.gov/gene/6197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008965	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	RSF1	http://www.ncbi.nlm.nih.gov/gene/51773	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008966	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	RUFY2	http://www.ncbi.nlm.nih.gov/gene/55680	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008967	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SBDS	http://www.ncbi.nlm.nih.gov/gene/155370	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008968	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SEC62	http://www.ncbi.nlm.nih.gov/gene/7095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008969	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SELT	http://www.ncbi.nlm.nih.gov/gene/51714	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008970	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SERPINB9	http://www.ncbi.nlm.nih.gov/gene/5272	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008971	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SETD5	http://www.ncbi.nlm.nih.gov/gene/55209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008972	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SFMBT1	http://www.ncbi.nlm.nih.gov/gene/51460	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008973	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SH3GL1	http://www.ncbi.nlm.nih.gov/gene/6455	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008974	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SIAH1	http://www.ncbi.nlm.nih.gov/gene/6477	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008975	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SIKE1	http://www.ncbi.nlm.nih.gov/gene/80143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008976	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SIRT1	http://www.ncbi.nlm.nih.gov/gene/23411	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008977	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SLC11A2	http://www.ncbi.nlm.nih.gov/gene/4891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008978	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SLC12A6	http://www.ncbi.nlm.nih.gov/gene/9990	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008979	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SLC23A2	http://www.ncbi.nlm.nih.gov/gene/9962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008980	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SLC25A13	http://www.ncbi.nlm.nih.gov/gene/10165	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008981	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SLC30A7	http://www.ncbi.nlm.nih.gov/gene/148867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008982	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SLC36A1	http://www.ncbi.nlm.nih.gov/gene/206358	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008983	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SLC38A2	http://www.ncbi.nlm.nih.gov/gene/54407	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008984	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SMAD4	http://www.ncbi.nlm.nih.gov/gene/4089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008985	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SOCS6	http://www.ncbi.nlm.nih.gov/gene/9306	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008986	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SOS1	http://www.ncbi.nlm.nih.gov/gene/6654	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008987	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SP100	http://www.ncbi.nlm.nih.gov/gene/6672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008988	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SPAG9	http://www.ncbi.nlm.nih.gov/gene/9043	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008989	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	SPC24	http://www.ncbi.nlm.nih.gov/gene/147841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008990	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	TAOK1	http://www.ncbi.nlm.nih.gov/gene/57551	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008991	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	TGIF2	http://www.ncbi.nlm.nih.gov/gene/60436	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008992	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	TMEM181	http://www.ncbi.nlm.nih.gov/gene/57583	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008993	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	TMEM192	http://www.ncbi.nlm.nih.gov/gene/201931	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008994	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	TMTC3	http://www.ncbi.nlm.nih.gov/gene/160418	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008995	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	TMX3	http://www.ncbi.nlm.nih.gov/gene/54495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008996	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	TP53INP2	http://www.ncbi.nlm.nih.gov/gene/58476	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008997	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	TRAM2	http://www.ncbi.nlm.nih.gov/gene/9697	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008998	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	TRPS1	http://www.ncbi.nlm.nih.gov/gene/7227	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00008999	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	TSC22D2	http://www.ncbi.nlm.nih.gov/gene/9819	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009000	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	TXLNB	http://www.ncbi.nlm.nih.gov/gene/167838	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009001	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	UBN2	http://www.ncbi.nlm.nih.gov/gene/254048	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009002	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	UBP1	http://www.ncbi.nlm.nih.gov/gene/7342	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009003	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	UBXN2B	http://www.ncbi.nlm.nih.gov/gene/137886	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009004	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	UHRF1BP1	http://www.ncbi.nlm.nih.gov/gene/54887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009005	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	USP31	http://www.ncbi.nlm.nih.gov/gene/57478	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009006	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	USP8	http://www.ncbi.nlm.nih.gov/gene/9101	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009007	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	VDAC1	http://www.ncbi.nlm.nih.gov/gene/7416	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009008	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	VPS26A	http://www.ncbi.nlm.nih.gov/gene/9559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009009	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	VPS52	http://www.ncbi.nlm.nih.gov/gene/6293	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009010	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	WDR75	http://www.ncbi.nlm.nih.gov/gene/84128	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009011	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	WHSC1	http://www.ncbi.nlm.nih.gov/gene/7468	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009012	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	WIPF2	http://www.ncbi.nlm.nih.gov/gene/147179	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009013	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	XPO4	http://www.ncbi.nlm.nih.gov/gene/64328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009014	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	XRN1	http://www.ncbi.nlm.nih.gov/gene/54464	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009015	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	YWHAG	http://www.ncbi.nlm.nih.gov/gene/7532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009016	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ZBTB43	http://www.ncbi.nlm.nih.gov/gene/23099	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009017	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ZCCHC14	http://www.ncbi.nlm.nih.gov/gene/23174	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009018	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ZCCHC3	http://www.ncbi.nlm.nih.gov/gene/85364	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009019	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ZDHHC17	http://www.ncbi.nlm.nih.gov/gene/23390	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009020	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ZHX1	http://www.ncbi.nlm.nih.gov/gene/11244	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009021	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ZNF292	http://www.ncbi.nlm.nih.gov/gene/23036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009022	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ZNF367	http://www.ncbi.nlm.nih.gov/gene/195828	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009023	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ZNF451	http://www.ncbi.nlm.nih.gov/gene/26036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009024	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	BC-3	-	Host	mRNA	ZNFX1	http://www.ncbi.nlm.nih.gov/gene/57169	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009025	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	TNFRSF12A	http://www.ncbi.nlm.nih.gov/gene/51330	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00009026	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K12-10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	-	-	Host	Protein	CDKN1B	http://www.ncbi.nlm.nih.gov/gene/1027	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009027	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K12-10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	-	-	Host	Protein	CTNND1	http://www.ncbi.nlm.nih.gov/gene/1500	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009028	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K12-10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	-	-	Host	Protein	MTUS1	http://www.ncbi.nlm.nih.gov/gene/57509	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009029	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K12-10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	-	-	Host	Protein	PKN2	http://www.ncbi.nlm.nih.gov/gene/5586	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009030	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K12-10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	-	-	Host	Protein	SOS1	http://www.ncbi.nlm.nih.gov/gene/6654	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009031	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K12-10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	-	-	Host	Protein	TPD52	http://www.ncbi.nlm.nih.gov/gene/7163	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009032	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K12-10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	-	-	Host	Protein	ZFYVE9	http://www.ncbi.nlm.nih.gov/gene/9372	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009033	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K12-10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	-	-	Host	Protein	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00009034	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K12-10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	-	-	Host	Protein	TNFRSF12A(TNFRSF12A/TWEAKR)	http://www.ncbi.nlm.nih.gov/gene/51330	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00009035	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K12-10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	-	-	Host	Protein	TWEAKR	http://www.ncbi.nlm.nih.gov/gene/51330	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00009036	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K12-10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	-	-	Host	mRNA	TNFRSF12A	http://www.ncbi.nlm.nih.gov/gene/51330	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009037	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10a(miR-K12-10a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002472	Lymphocytes	-	Host	Protein	TWEAKR	http://www.ncbi.nlm.nih.gov/gene/51330	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	miR-K12-10a reduction of TWEAKR,miR-K12-1, -6, and -11 decrease of MAF(musculoaponeurotic fibrosarcoma oncogene homolog)K12-4-5p targeting retinoblastoma(Rb)-like protein 2(Rbl2) and miR-K12-5 and -9* suppressing ORF50 mRNAc.
VHID00009038	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	SEPT2		-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009039	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	ANKIB1	http://www.ncbi.nlm.nih.gov/gene/54467	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009040	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	ARID1A	http://www.ncbi.nlm.nih.gov/gene/8289	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009041	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	ATF2	http://www.ncbi.nlm.nih.gov/gene/1386	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009042	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	AZIN1	http://www.ncbi.nlm.nih.gov/gene/51582	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009043	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	BAZ2A	http://www.ncbi.nlm.nih.gov/gene/11176	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009044	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	C13orf23	http://www.ncbi.nlm.nih.gov/gene/80209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009045	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	C17orf42	http://www.ncbi.nlm.nih.gov/gene/79736	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009046	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	CCNL1	http://www.ncbi.nlm.nih.gov/gene/57018	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009047	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	CLDN12	http://www.ncbi.nlm.nih.gov/gene/9069	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009048	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	COMMD2	http://www.ncbi.nlm.nih.gov/gene/51122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009049	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	CTSO	http://www.ncbi.nlm.nih.gov/gene/1519	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009050	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	DDX52	http://www.ncbi.nlm.nih.gov/gene/11056	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009051	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	ETNK1	http://www.ncbi.nlm.nih.gov/gene/55500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009052	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	EXOSC1	http://www.ncbi.nlm.nih.gov/gene/51013	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009053	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	FBXO45	http://www.ncbi.nlm.nih.gov/gene/200933	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009054	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	FLNA	http://www.ncbi.nlm.nih.gov/gene/2316	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009055	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	HDGF	http://www.ncbi.nlm.nih.gov/gene/3068	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009056	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	HSPA4	http://www.ncbi.nlm.nih.gov/gene/3308	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009057	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	IL21R	http://www.ncbi.nlm.nih.gov/gene/50615	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009058	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	INTS6	http://www.ncbi.nlm.nih.gov/gene/26512	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009059	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	IRF1	http://www.ncbi.nlm.nih.gov/gene/3659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009060	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	KIAA0831	http://www.ncbi.nlm.nih.gov/gene/22863	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009061	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	KLHL18	http://www.ncbi.nlm.nih.gov/gene/23276	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009062	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	LCOR	http://www.ncbi.nlm.nih.gov/gene/84458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009063	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	PHF20L1	http://www.ncbi.nlm.nih.gov/gene/51105	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009064	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	PLXNB2	http://www.ncbi.nlm.nih.gov/gene/23654	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009065	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	POGK	http://www.ncbi.nlm.nih.gov/gene/57645	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009066	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	QSER1	http://www.ncbi.nlm.nih.gov/gene/79832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009067	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	RAB10	http://www.ncbi.nlm.nih.gov/gene/10890	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009068	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	RABL3	http://www.ncbi.nlm.nih.gov/gene/285282	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009069	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	RASSF8	http://www.ncbi.nlm.nih.gov/gene/11228	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009070	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	RNF168	http://www.ncbi.nlm.nih.gov/gene/165918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009071	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	SLC30A6	http://www.ncbi.nlm.nih.gov/gene/55676	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009072	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	SNX29	http://www.ncbi.nlm.nih.gov/gene/92017	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009073	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	TMED7	http://www.ncbi.nlm.nih.gov/gene/353376	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009074	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	TNRC6B	http://www.ncbi.nlm.nih.gov/gene/23112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009075	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	UBE2V1	http://www.ncbi.nlm.nih.gov/gene/387522	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009076	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	VPS37A	http://www.ncbi.nlm.nih.gov/gene/137492	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009077	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	YWHAZ	http://www.ncbi.nlm.nih.gov/gene/7534	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009078	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	ZBTB34	http://www.ncbi.nlm.nih.gov/gene/403341	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009079	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	ZNF28	http://www.ncbi.nlm.nih.gov/gene/7576	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009080	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-1	-	Host	mRNA	ZNF724P	http://www.ncbi.nlm.nih.gov/gene/440519	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009081	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	SEPT2		-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009082	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	ACBD3	http://www.ncbi.nlm.nih.gov/gene/64746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009083	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	ACTR3	http://www.ncbi.nlm.nih.gov/gene/10096	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009084	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	ANKIB1	http://www.ncbi.nlm.nih.gov/gene/54467	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009085	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	AZIN1	http://www.ncbi.nlm.nih.gov/gene/51582	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009086	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	BAZ2A	http://www.ncbi.nlm.nih.gov/gene/11176	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009087	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	C22orf29	http://www.ncbi.nlm.nih.gov/gene/79680	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009088	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	CACNA2D1	http://www.ncbi.nlm.nih.gov/gene/781	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009089	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	CCNL1	http://www.ncbi.nlm.nih.gov/gene/57018	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009090	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	COMMD2	http://www.ncbi.nlm.nih.gov/gene/51122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009091	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	CYCS	http://www.ncbi.nlm.nih.gov/gene/54205	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009092	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	DEF8	http://www.ncbi.nlm.nih.gov/gene/54849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009093	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	DLG5	http://www.ncbi.nlm.nih.gov/gene/9231	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009094	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	GOLGA4	http://www.ncbi.nlm.nih.gov/gene/2803	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009095	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	GPR172A	http://www.ncbi.nlm.nih.gov/gene/79581	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009096	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	IL21R	http://www.ncbi.nlm.nih.gov/gene/50615	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009097	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	IRF1	http://www.ncbi.nlm.nih.gov/gene/3659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009098	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	KBTBD4	http://www.ncbi.nlm.nih.gov/gene/55709	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009099	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	KIAA1826	http://www.ncbi.nlm.nih.gov/gene/84437	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009100	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	LCOR	http://www.ncbi.nlm.nih.gov/gene/84458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009101	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	MGST1	http://www.ncbi.nlm.nih.gov/gene/4257	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009102	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	PLXNB2	http://www.ncbi.nlm.nih.gov/gene/23654	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009103	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	POGK	http://www.ncbi.nlm.nih.gov/gene/57645	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009104	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	PPP1R12B	http://www.ncbi.nlm.nih.gov/gene/4660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009105	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	RAB10	http://www.ncbi.nlm.nih.gov/gene/10890	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009106	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	RANGAP1	http://www.ncbi.nlm.nih.gov/gene/5905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009107	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	RNF24	http://www.ncbi.nlm.nih.gov/gene/11237	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009108	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	SLC30A6	http://www.ncbi.nlm.nih.gov/gene/55676	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009109	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	STK35	http://www.ncbi.nlm.nih.gov/gene/140901	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009110	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	TMED4	http://www.ncbi.nlm.nih.gov/gene/222068	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009111	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	TMED7	http://www.ncbi.nlm.nih.gov/gene/353376	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009112	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	TMPPE	http://www.ncbi.nlm.nih.gov/gene/643853	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009113	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	TRAF3	http://www.ncbi.nlm.nih.gov/gene/7187	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009114	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	UBE2V1	http://www.ncbi.nlm.nih.gov/gene/387522	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009115	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	VPS37A	http://www.ncbi.nlm.nih.gov/gene/137492	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009116	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	ZBTB34	http://www.ncbi.nlm.nih.gov/gene/403341	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009117	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	ZNF451	http://www.ncbi.nlm.nih.gov/gene/26036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009118	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	ZNF588	http://www.ncbi.nlm.nih.gov/gene/51427	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009119	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	BC-3	-	Host	mRNA	ZNF714	http://www.ncbi.nlm.nih.gov/gene/148206	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009120	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K12-10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	-	-	Host	Protein	CDKN1B	http://www.ncbi.nlm.nih.gov/gene/1027	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009121	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K12-10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	-	-	Host	Protein	CTNND1	http://www.ncbi.nlm.nih.gov/gene/1500	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009122	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K12-10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	-	-	Host	Protein	MTUS1	http://www.ncbi.nlm.nih.gov/gene/57509	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009123	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K12-10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	-	-	Host	Protein	PKN2	http://www.ncbi.nlm.nih.gov/gene/5586	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009124	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K12-10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	-	-	Host	Protein	SOS1	http://www.ncbi.nlm.nih.gov/gene/6654	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009125	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K12-10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	-	-	Host	Protein	TPD52	http://www.ncbi.nlm.nih.gov/gene/7163	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009126	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K12-10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	-	-	Host	Protein	ZFYVE9	http://www.ncbi.nlm.nih.gov/gene/9372	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009127	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K12-10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	-	-	Host	mRNA	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009128	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K12-10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	-	-	Host	Protein	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00009129	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-10b(miR-K12-10b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002473	-	-	Host	mRNA	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VHID00009130	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC3	-	Host	mRNA	Bach1		-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009131	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC3	-	Host	mRNA	CEBPB	http://www.ncbi.nlm.nih.gov/gene/1051	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009132	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC3	-	Host	mRNA	FOS	http://www.ncbi.nlm.nih.gov/gene/2353	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009133	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BCBL1	-	Host	mRNA	Bach1		-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009134	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BCBL1	-	Host	mRNA	CEBPB	http://www.ncbi.nlm.nih.gov/gene/1051	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009135	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BCBL1	-	Host	mRNA	FOS	http://www.ncbi.nlm.nih.gov/gene/2353	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009136	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BCBL1	-	Host	mRNA	SLA	http://www.ncbi.nlm.nih.gov/gene/6503	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009137	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BCBL1	-	Host	mRNA	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009138	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	P21	http://www.ncbi.nlm.nih.gov/gene/644914	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00009139	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00009140	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	MAF	http://www.ncbi.nlm.nih.gov/gene/4094	-	Iferase reporter assays, miRNA target prediction analysis, KSHV production and infection of LECs, qPCR and qRT-PCR, Western blotting, Gene expression and miRNA microarray profiling, Subcloning of KSHV miRNAs into pSIN-MCS, GSEA, Gene expression and miRNA microarray.	20080955	MAF is a target for KSHV-encoded miRNAs.Although miR-K12-6 and miR-K12-11 induced MAF repression, the strongest down-regulation was caused by the entire cluster .
VHID00009141	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00009142	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ABL2	http://www.ncbi.nlm.nih.gov/gene/27	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009143	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ACTR10	http://www.ncbi.nlm.nih.gov/gene/55860	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009144	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ADNP	http://www.ncbi.nlm.nih.gov/gene/23394	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009145	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	AFF4	http://www.ncbi.nlm.nih.gov/gene/27125	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009146	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	AIMP1	http://www.ncbi.nlm.nih.gov/gene/9255	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009147	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ANKFY1	http://www.ncbi.nlm.nih.gov/gene/51479	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009148	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ANKRD40	http://www.ncbi.nlm.nih.gov/gene/91369	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009149	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ANXA2	http://www.ncbi.nlm.nih.gov/gene/305	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009150	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	AP1GBP1	http://www.ncbi.nlm.nih.gov/gene/11276 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009151	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ARHGAP18	http://www.ncbi.nlm.nih.gov/gene/93663	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009152	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ARL15	http://www.ncbi.nlm.nih.gov/gene/54622	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009153	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ARL5B	http://www.ncbi.nlm.nih.gov/gene/221079	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009154	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ARL6IP5	http://www.ncbi.nlm.nih.gov/gene/10550	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009155	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ARL8B	http://www.ncbi.nlm.nih.gov/gene/55207	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009156	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ASAP1	http://www.ncbi.nlm.nih.gov/gene/50807	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009157	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ATP6V1C1	http://www.ncbi.nlm.nih.gov/gene/528	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009158	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ATP6V1G1	http://www.ncbi.nlm.nih.gov/gene/9550	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009159	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ATP9A	http://www.ncbi.nlm.nih.gov/gene/10079	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009160	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ATXN1L	http://www.ncbi.nlm.nih.gov/gene/342371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009161	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	AUH	http://www.ncbi.nlm.nih.gov/gene/549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009162	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	AZIN1	http://www.ncbi.nlm.nih.gov/gene/51582	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009163	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009164	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	BBS10	http://www.ncbi.nlm.nih.gov/gene/79738	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009165	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	BET1	http://www.ncbi.nlm.nih.gov/gene/100128542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009166	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	BNC2	http://www.ncbi.nlm.nih.gov/gene/54796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009167	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	BRWD1	http://www.ncbi.nlm.nih.gov/gene/54014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009168	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	BTBD1	http://www.ncbi.nlm.nih.gov/gene/53339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009169	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	BTN2A2	http://www.ncbi.nlm.nih.gov/gene/10385	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009170	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	C10orf12	http://www.ncbi.nlm.nih.gov/gene/26148	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009171	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	C11orf30	http://www.ncbi.nlm.nih.gov/gene/56946	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009172	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	C1orf103	http://www.ncbi.nlm.nih.gov/gene/55791	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009173	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	C1orf55	http://www.ncbi.nlm.nih.gov/gene/163859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009174	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	C1orf63	http://www.ncbi.nlm.nih.gov/gene/57035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009175	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	C20orf177	http://www.ncbi.nlm.nih.gov/gene/63939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009176	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	C3orf23	http://www.ncbi.nlm.nih.gov/gene/285343	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009177	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	C5orf24	http://www.ncbi.nlm.nih.gov/gene/134553	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009178	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	C5orf41	http://www.ncbi.nlm.nih.gov/gene/153222	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009179	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	C8orf44	http://www.ncbi.nlm.nih.gov/gene/56260	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009180	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	C9orf5	http://www.ncbi.nlm.nih.gov/gene/23731	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009181	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CA13	http://www.ncbi.nlm.nih.gov/gene/377677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009182	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CASP8AP2	http://www.ncbi.nlm.nih.gov/gene/9994	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009183	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CASP9	http://www.ncbi.nlm.nih.gov/gene/842	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009184	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CBL	http://www.ncbi.nlm.nih.gov/gene/867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009185	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CBR4	http://www.ncbi.nlm.nih.gov/gene/84869	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009186	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CCDC126	http://www.ncbi.nlm.nih.gov/gene/90693	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009187	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CCT2	http://www.ncbi.nlm.nih.gov/gene/10576	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009188	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CD274	http://www.ncbi.nlm.nih.gov/gene/29126	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009189	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CD59	http://www.ncbi.nlm.nih.gov/gene/966	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009190	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CDC42EP4	http://www.ncbi.nlm.nih.gov/gene/23580	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009191	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CDC42SE2	http://www.ncbi.nlm.nih.gov/gene/56990	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009192	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CDC73	http://www.ncbi.nlm.nih.gov/gene/79577	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009193	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CFL2	http://www.ncbi.nlm.nih.gov/gene/1073	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009194	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CHD7	http://www.ncbi.nlm.nih.gov/gene/55636	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009195	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CHD8	http://www.ncbi.nlm.nih.gov/gene/57680	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009196	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CIAPIN1	http://www.ncbi.nlm.nih.gov/gene/57019	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009197	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CLCN3	http://www.ncbi.nlm.nih.gov/gene/1182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009198	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CLCN5	http://www.ncbi.nlm.nih.gov/gene/1184	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009199	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CLUAP1	http://www.ncbi.nlm.nih.gov/gene/23059	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009200	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CNIH	http://www.ncbi.nlm.nih.gov/gene/10175	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009201	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CNOT6L	http://www.ncbi.nlm.nih.gov/gene/246175	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009202	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	COX11	http://www.ncbi.nlm.nih.gov/gene/1353	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009203	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CPNE3	http://www.ncbi.nlm.nih.gov/gene/8895	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009204	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CREG1	http://www.ncbi.nlm.nih.gov/gene/8804	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009205	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CRLF3	http://www.ncbi.nlm.nih.gov/gene/51379	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009206	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CSNK1A1	http://www.ncbi.nlm.nih.gov/gene/1452	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009207	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CSRNP2	http://www.ncbi.nlm.nih.gov/gene/81566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009208	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CTHRC1	http://www.ncbi.nlm.nih.gov/gene/115908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009209	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CTSS	http://www.ncbi.nlm.nih.gov/gene/1520	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009210	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CTTNBP2NL	http://www.ncbi.nlm.nih.gov/gene/55917	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009211	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CUX1	http://www.ncbi.nlm.nih.gov/gene/1523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009212	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CXorf23	http://www.ncbi.nlm.nih.gov/gene/256643	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009213	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CXorf39	http://www.ncbi.nlm.nih.gov/gene/139231 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009214	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CYB561D1	http://www.ncbi.nlm.nih.gov/gene/284613	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009215	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	CYP2U1	http://www.ncbi.nlm.nih.gov/gene/113612	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009216	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	DBF4	http://www.ncbi.nlm.nih.gov/gene/10926	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009217	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	DCUN1D2	http://www.ncbi.nlm.nih.gov/gene/55208	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009218	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	DCUN1D3	http://www.ncbi.nlm.nih.gov/gene/123879	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009219	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	DDX17	http://www.ncbi.nlm.nih.gov/gene/10521	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009220	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	DIS3L	http://www.ncbi.nlm.nih.gov/gene/115752	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009221	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	DIXDC1	http://www.ncbi.nlm.nih.gov/gene/85458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009222	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	DMTF1	http://www.ncbi.nlm.nih.gov/gene/9988	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009223	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	DMXL2	http://www.ncbi.nlm.nih.gov/gene/23312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009224	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	DNAJC19	http://www.ncbi.nlm.nih.gov/gene/131118	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009225	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	DPY19L1	http://www.ncbi.nlm.nih.gov/gene/23333	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009226	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	DSG2	http://www.ncbi.nlm.nih.gov/gene/1829	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009227	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	DUSP14	http://www.ncbi.nlm.nih.gov/gene/11072	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009228	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	E2F2	http://www.ncbi.nlm.nih.gov/gene/1870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009229	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	EDEM3	http://www.ncbi.nlm.nih.gov/gene/80267	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009230	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	EEF2	http://www.ncbi.nlm.nih.gov/gene/1938	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009231	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	EGLN1	http://www.ncbi.nlm.nih.gov/gene/54583	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009232	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ELK3	http://www.ncbi.nlm.nih.gov/gene/2004	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009233	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ELK4	http://www.ncbi.nlm.nih.gov/gene/2005	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009234	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ENTPD7	http://www.ncbi.nlm.nih.gov/gene/57089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009235	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ETV3	http://www.ncbi.nlm.nih.gov/gene/2117	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009236	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	EXOC8	http://www.ncbi.nlm.nih.gov/gene/149371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009237	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	EYA4	http://www.ncbi.nlm.nih.gov/gene/2070	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009238	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	FAM105B	http://www.ncbi.nlm.nih.gov/gene/90268	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009239	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	FAM160B1	http://www.ncbi.nlm.nih.gov/gene/57700	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009240	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	FAM69A	http://www.ncbi.nlm.nih.gov/gene/388650	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009241	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	FAR1	http://www.ncbi.nlm.nih.gov/gene/84188	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009242	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	FBXO11	http://www.ncbi.nlm.nih.gov/gene/80204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009243	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	FBXO48	http://www.ncbi.nlm.nih.gov/gene/554251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009244	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	FEM1C	http://www.ncbi.nlm.nih.gov/gene/56929	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009245	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	FITM2	http://www.ncbi.nlm.nih.gov/gene/128486	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009246	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	FMNL2	http://www.ncbi.nlm.nih.gov/gene/114793	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009247	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	FNIP1	http://www.ncbi.nlm.nih.gov/gene/96459	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009248	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	FOS	http://www.ncbi.nlm.nih.gov/gene/2353	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009249	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	FOSL2	http://www.ncbi.nlm.nih.gov/gene/2355	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009250	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	FOXK1	http://www.ncbi.nlm.nih.gov/gene/221937	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009251	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	FSTL5	http://www.ncbi.nlm.nih.gov/gene/56884	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009252	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	FUBP1	http://www.ncbi.nlm.nih.gov/gene/8880	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009253	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	GALT	http://www.ncbi.nlm.nih.gov/gene/2592	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009254	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	GLT8D3	http://www.ncbi.nlm.nih.gov/gene/283464 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009255	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	GLUL	http://www.ncbi.nlm.nih.gov/gene/2752	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009256	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	GMNN	http://www.ncbi.nlm.nih.gov/gene/51053	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009257	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	GNA13	http://www.ncbi.nlm.nih.gov/gene/10672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009258	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	GOLM1	http://www.ncbi.nlm.nih.gov/gene/51280	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009259	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	GOPC	http://www.ncbi.nlm.nih.gov/gene/57120	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009260	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	GPSM2	http://www.ncbi.nlm.nih.gov/gene/29899	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009261	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	GRIP1	http://www.ncbi.nlm.nih.gov/gene/23426	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009262	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	GYG1	http://www.ncbi.nlm.nih.gov/gene/2992	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009263	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	HCFC2	http://www.ncbi.nlm.nih.gov/gene/29915	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009264	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	HCN3	http://www.ncbi.nlm.nih.gov/gene/57657	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009265	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	HDX	http://www.ncbi.nlm.nih.gov/gene/139324	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009266	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	HELQ	http://www.ncbi.nlm.nih.gov/gene/113510	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009267	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	HIBCH	http://www.ncbi.nlm.nih.gov/gene/26275	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009268	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	HLA-DPA1	http://www.ncbi.nlm.nih.gov/gene/3113	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009269	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	HMGCS1	http://www.ncbi.nlm.nih.gov/gene/3157	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009270	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	HSDL1	http://www.ncbi.nlm.nih.gov/gene/83693	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009271	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	IL1RAP	http://www.ncbi.nlm.nih.gov/gene/3556	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009272	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	IL6ST	http://www.ncbi.nlm.nih.gov/gene/3572	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009273	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	INO80D	http://www.ncbi.nlm.nih.gov/gene/54891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009274	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	IRF2BP2	http://www.ncbi.nlm.nih.gov/gene/359948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009275	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ITGAV	http://www.ncbi.nlm.nih.gov/gene/3685	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009276	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	JARID2	http://www.ncbi.nlm.nih.gov/gene/3720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009277	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	KAT2A	http://www.ncbi.nlm.nih.gov/gene/2648	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009278	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	KBTBD2	http://www.ncbi.nlm.nih.gov/gene/25948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009279	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	KCTD7	http://www.ncbi.nlm.nih.gov/gene/154881	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009280	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	KDM5B	http://www.ncbi.nlm.nih.gov/gene/10765	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009281	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	KIAA1267	http://www.ncbi.nlm.nih.gov/gene/284058	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009282	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	KIAA1704	http://www.ncbi.nlm.nih.gov/gene/55425	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009283	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	KIF14	http://www.ncbi.nlm.nih.gov/gene/9928	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009284	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	KIF20B	http://www.ncbi.nlm.nih.gov/gene/9585	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009285	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	KIF3A	http://www.ncbi.nlm.nih.gov/gene/11127	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009286	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	KIFC2	http://www.ncbi.nlm.nih.gov/gene/90990	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009287	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	KLF3	http://www.ncbi.nlm.nih.gov/gene/51274	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009288	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	KLHDC5	http://www.ncbi.nlm.nih.gov/gene/57542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009289	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	KLHL8	http://www.ncbi.nlm.nih.gov/gene/57563	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009290	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	KPNA1	http://www.ncbi.nlm.nih.gov/gene/3836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009291	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	KRAS	http://www.ncbi.nlm.nih.gov/gene/3845	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009292	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	L2HGDH	http://www.ncbi.nlm.nih.gov/gene/79944	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009293	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	LASS6	http://www.ncbi.nlm.nih.gov/gene/253782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009294	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	LATS2	http://www.ncbi.nlm.nih.gov/gene/26524	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009295	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	LCORL	http://www.ncbi.nlm.nih.gov/gene/254251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009296	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	LIN28B	http://www.ncbi.nlm.nih.gov/gene/389421	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009297	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	LNX2	http://www.ncbi.nlm.nih.gov/gene/222484	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009298	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	LPHN3	http://www.ncbi.nlm.nih.gov/gene/23284	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009299	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	LRRC58	http://www.ncbi.nlm.nih.gov/gene/116064	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009300	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	LRRC59	http://www.ncbi.nlm.nih.gov/gene/55379	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009301	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	LYSMD3	http://www.ncbi.nlm.nih.gov/gene/116068	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009302	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	MAP3K13	http://www.ncbi.nlm.nih.gov/gene/9175	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009303	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	MAP3K14	http://www.ncbi.nlm.nih.gov/gene/9020	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009304	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	MAP3K2	http://www.ncbi.nlm.nih.gov/gene/10746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009305	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	MAP3K7IP2	http://www.ncbi.nlm.nih.gov/gene/23118 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009306	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	MECP2	http://www.ncbi.nlm.nih.gov/gene/4204	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009307	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	MEX3C	http://www.ncbi.nlm.nih.gov/gene/51320	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009308	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	MIDN	http://www.ncbi.nlm.nih.gov/gene/90007	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009309	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	MIER1	http://www.ncbi.nlm.nih.gov/gene/57708	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009310	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	MIER3	http://www.ncbi.nlm.nih.gov/gene/166968	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009311	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	MITF	http://www.ncbi.nlm.nih.gov/gene/4286	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009312	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	MKLN1	http://www.ncbi.nlm.nih.gov/gene/4289	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009313	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	MLLT4	http://www.ncbi.nlm.nih.gov/gene/4301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009314	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	MPP5	http://www.ncbi.nlm.nih.gov/gene/64398	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009315	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	MYB	http://www.ncbi.nlm.nih.gov/gene/4602	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009316	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	MYD88	http://www.ncbi.nlm.nih.gov/gene/4615	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009317	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	MYST3	http://www.ncbi.nlm.nih.gov/gene/7994	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009318	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	NAPEPLD	http://www.ncbi.nlm.nih.gov/gene/222236	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009319	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	NARS	http://www.ncbi.nlm.nih.gov/gene/4677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009320	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	NAT13	http://www.ncbi.nlm.nih.gov/gene/80218 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009321	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	NDFIP1	http://www.ncbi.nlm.nih.gov/gene/80762	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009322	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	NFIA	http://www.ncbi.nlm.nih.gov/gene/4774	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009323	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009324	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	NR1D2	http://www.ncbi.nlm.nih.gov/gene/9975	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009325	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	NR1H3	http://www.ncbi.nlm.nih.gov/gene/10062	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009326	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009327	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	NUP155	http://www.ncbi.nlm.nih.gov/gene/9631	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009328	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	NUP43	http://www.ncbi.nlm.nih.gov/gene/348995	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009329	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	OGT	http://www.ncbi.nlm.nih.gov/gene/8473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009330	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PAPOLA	http://www.ncbi.nlm.nih.gov/gene/10914	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009331	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PCDHB10	http://www.ncbi.nlm.nih.gov/gene/56126	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009332	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PCMTD1	http://www.ncbi.nlm.nih.gov/gene/115294	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009333	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PDCD4	http://www.ncbi.nlm.nih.gov/gene/27250	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009334	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PDCD6	http://www.ncbi.nlm.nih.gov/gene/10016	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009335	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PDE12	http://www.ncbi.nlm.nih.gov/gene/201626	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009336	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PDLIM5	http://www.ncbi.nlm.nih.gov/gene/10611	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009337	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PEBP1	http://www.ncbi.nlm.nih.gov/gene/5037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009338	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PET112L	http://www.ncbi.nlm.nih.gov/gene/5188	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009339	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PHC3	http://www.ncbi.nlm.nih.gov/gene/80012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009340	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PHF17	http://www.ncbi.nlm.nih.gov/gene/79960	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009341	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PHF6	http://www.ncbi.nlm.nih.gov/gene/84295	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009342	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PICALM	http://www.ncbi.nlm.nih.gov/gene/8301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009343	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PKIA	http://www.ncbi.nlm.nih.gov/gene/5569	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009344	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PKN2	http://www.ncbi.nlm.nih.gov/gene/5586	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009345	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PLDN	http://www.ncbi.nlm.nih.gov/gene/26258	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009346	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PLEKHB2	http://www.ncbi.nlm.nih.gov/gene/55041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009347	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PNPT1	http://www.ncbi.nlm.nih.gov/gene/87178	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009348	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009349	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PPP2CB	http://www.ncbi.nlm.nih.gov/gene/5516	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009350	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PPTC7	http://www.ncbi.nlm.nih.gov/gene/160760	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009351	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PSKH1	http://www.ncbi.nlm.nih.gov/gene/5681	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009352	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PTAR1	http://www.ncbi.nlm.nih.gov/gene/375743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009353	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PTPN11	http://www.ncbi.nlm.nih.gov/gene/344593	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009354	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PTPRJ	http://www.ncbi.nlm.nih.gov/gene/5795	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009355	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	PUS7L	http://www.ncbi.nlm.nih.gov/gene/83448	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009356	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RAB3GAP1	http://www.ncbi.nlm.nih.gov/gene/22930	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009357	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RAPGEF2	http://www.ncbi.nlm.nih.gov/gene/9693	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009358	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RAPH1	http://www.ncbi.nlm.nih.gov/gene/65059	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009359	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RB1	http://www.ncbi.nlm.nih.gov/gene/5925	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009360	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RBM47	http://www.ncbi.nlm.nih.gov/gene/54502	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009361	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RC3H2	http://www.ncbi.nlm.nih.gov/gene/54542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009362	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RCHY1	http://www.ncbi.nlm.nih.gov/gene/25898	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009363	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RECK	http://www.ncbi.nlm.nih.gov/gene/8434	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009364	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RFK	http://www.ncbi.nlm.nih.gov/gene/55312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009365	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RGL1	http://www.ncbi.nlm.nih.gov/gene/23179	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009366	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RGP1	http://www.ncbi.nlm.nih.gov/gene/9827	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009367	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RIT1	http://www.ncbi.nlm.nih.gov/gene/6016	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009368	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RNF146	http://www.ncbi.nlm.nih.gov/gene/81847	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009369	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RNF213	http://www.ncbi.nlm.nih.gov/gene/57674	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009370	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RNGTT	http://www.ncbi.nlm.nih.gov/gene/8732	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009371	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009372	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RP2	http://www.ncbi.nlm.nih.gov/gene/6102	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009373	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RPE	http://www.ncbi.nlm.nih.gov/gene/729020	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009374	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RPS6KA3	http://www.ncbi.nlm.nih.gov/gene/6197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009375	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	RUFY2	http://www.ncbi.nlm.nih.gov/gene/55680	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009376	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SACM1L	http://www.ncbi.nlm.nih.gov/gene/22908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009377	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SAP30L	http://www.ncbi.nlm.nih.gov/gene/79685	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009378	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SCAMP1	http://www.ncbi.nlm.nih.gov/gene/9522	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009379	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SCRN3	http://www.ncbi.nlm.nih.gov/gene/79634	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009380	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SERTAD2	http://www.ncbi.nlm.nih.gov/gene/9792	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009381	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SETD7	http://www.ncbi.nlm.nih.gov/gene/80854	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009382	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SH3PXD2A	http://www.ncbi.nlm.nih.gov/gene/9644	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009383	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SKIV2L2	http://www.ncbi.nlm.nih.gov/gene/23517	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009384	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SLC30A1	http://www.ncbi.nlm.nih.gov/gene/7779	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009385	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SLC35A1	http://www.ncbi.nlm.nih.gov/gene/10559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009386	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SLC35F2	http://www.ncbi.nlm.nih.gov/gene/54733	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009387	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SLFN11	http://www.ncbi.nlm.nih.gov/gene/91607	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009388	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SMAD2	http://www.ncbi.nlm.nih.gov/gene/4087	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009389	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SMAD5	http://www.ncbi.nlm.nih.gov/gene/4090	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009390	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SNX29	http://www.ncbi.nlm.nih.gov/gene/92017	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009391	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SOCS5	http://www.ncbi.nlm.nih.gov/gene/9655	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009392	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SP1	http://www.ncbi.nlm.nih.gov/gene/6667	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009393	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SP3	http://www.ncbi.nlm.nih.gov/gene/6670	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009394	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SPIN1	http://www.ncbi.nlm.nih.gov/gene/10927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009395	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	STAG2	http://www.ncbi.nlm.nih.gov/gene/10735	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009396	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	STARD5	http://www.ncbi.nlm.nih.gov/gene/80765	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009397	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	STRN3	http://www.ncbi.nlm.nih.gov/gene/29966	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009398	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	SYT1	http://www.ncbi.nlm.nih.gov/gene/6857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009399	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TAF5L	http://www.ncbi.nlm.nih.gov/gene/27097	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009400	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TBC1D15	http://www.ncbi.nlm.nih.gov/gene/64786	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009401	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TCF12	http://www.ncbi.nlm.nih.gov/gene/6938	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009402	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TCF4	http://www.ncbi.nlm.nih.gov/gene/6925	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009403	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TCF7L2	http://www.ncbi.nlm.nih.gov/gene/6934	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009404	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TCTN3	http://www.ncbi.nlm.nih.gov/gene/26123	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009405	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TET1	http://www.ncbi.nlm.nih.gov/gene/80312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009406	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TET2	http://www.ncbi.nlm.nih.gov/gene/54790	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009407	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TFDP2	http://www.ncbi.nlm.nih.gov/gene/7029	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009408	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TMEM33	http://www.ncbi.nlm.nih.gov/gene/55161	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009409	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TMX3	http://www.ncbi.nlm.nih.gov/gene/54495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009410	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TNPO1	http://www.ncbi.nlm.nih.gov/gene/3842	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009411	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009412	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TPD52	http://www.ncbi.nlm.nih.gov/gene/7163	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009413	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TPRKB	http://www.ncbi.nlm.nih.gov/gene/51002	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009414	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TRAM1	http://www.ncbi.nlm.nih.gov/gene/23471	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009415	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TRIM32	http://www.ncbi.nlm.nih.gov/gene/22954	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009416	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TRIP13	http://www.ncbi.nlm.nih.gov/gene/9319	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009417	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TRUB1	http://www.ncbi.nlm.nih.gov/gene/142940	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009418	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TTC7A	http://www.ncbi.nlm.nih.gov/gene/57217	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009419	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TWF1	http://www.ncbi.nlm.nih.gov/gene/5756	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009420	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	TXNRD1	http://www.ncbi.nlm.nih.gov/gene/7296	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009421	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	UBE2D3	http://www.ncbi.nlm.nih.gov/gene/100037280	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009422	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	UBL3	http://www.ncbi.nlm.nih.gov/gene/5412	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009423	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	UBR4	http://www.ncbi.nlm.nih.gov/gene/23352	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009424	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	UBXN2B	http://www.ncbi.nlm.nih.gov/gene/137886	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009425	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	UPF2	http://www.ncbi.nlm.nih.gov/gene/26019	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009426	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	UQCRB	http://www.ncbi.nlm.nih.gov/gene/442454	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009427	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	USP30	http://www.ncbi.nlm.nih.gov/gene/84749	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009428	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	VAMP3	http://www.ncbi.nlm.nih.gov/gene/9341	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009429	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	VCPIP1	http://www.ncbi.nlm.nih.gov/gene/80124	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009430	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	VEZF1	http://www.ncbi.nlm.nih.gov/gene/7716	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009431	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	VMA21	http://www.ncbi.nlm.nih.gov/gene/203547	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009432	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	VPS36	http://www.ncbi.nlm.nih.gov/gene/51028	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009433	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	VTI1A	http://www.ncbi.nlm.nih.gov/gene/143187	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009434	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	WDR82	http://www.ncbi.nlm.nih.gov/gene/80335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009435	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	WEE1	http://www.ncbi.nlm.nih.gov/gene/7465	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009436	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	WWC1	http://www.ncbi.nlm.nih.gov/gene/23286	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009437	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	WWP1	http://www.ncbi.nlm.nih.gov/gene/11059	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009438	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	XIAP	http://www.ncbi.nlm.nih.gov/gene/331	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009439	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	XPNPEP1	http://www.ncbi.nlm.nih.gov/gene/7511	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009440	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	YIPF6	http://www.ncbi.nlm.nih.gov/gene/286451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009441	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	YME1L1	http://www.ncbi.nlm.nih.gov/gene/10730	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009442	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	YWHAE	http://www.ncbi.nlm.nih.gov/gene/7531	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009443	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ZBTB38	http://www.ncbi.nlm.nih.gov/gene/253461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009444	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ZKSCAN5	http://www.ncbi.nlm.nih.gov/gene/23660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009445	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ZNF238	http://www.ncbi.nlm.nih.gov/gene/10472	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009446	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ZNF431	http://www.ncbi.nlm.nih.gov/gene/170959	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009447	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ZNF492	http://www.ncbi.nlm.nih.gov/gene/100130108	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009448	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ZNF518A	http://www.ncbi.nlm.nih.gov/gene/9849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009449	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ZNF605	http://www.ncbi.nlm.nih.gov/gene/100289635	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009450	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ZNF621	http://www.ncbi.nlm.nih.gov/gene/285268	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009451	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ZNF644	http://www.ncbi.nlm.nih.gov/gene/84146	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009452	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ZNF652	http://www.ncbi.nlm.nih.gov/gene/22834	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009453	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ZNF678	http://www.ncbi.nlm.nih.gov/gene/339500	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009454	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ZNF680	http://www.ncbi.nlm.nih.gov/gene/340252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009455	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ZNF701	http://www.ncbi.nlm.nih.gov/gene/55762	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009456	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ZNF714	http://www.ncbi.nlm.nih.gov/gene/148206	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009457	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ZNF721	http://www.ncbi.nlm.nih.gov/gene/170960	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009458	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-1	-	Host	mRNA	ZNF724P	http://www.ncbi.nlm.nih.gov/gene/440519	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009459	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	ANKFY1	http://www.ncbi.nlm.nih.gov/gene/51479	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009460	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	APAF1	http://www.ncbi.nlm.nih.gov/gene/317	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009461	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	ARID2	http://www.ncbi.nlm.nih.gov/gene/196528	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009462	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	ARL6IP5	http://www.ncbi.nlm.nih.gov/gene/10550	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009463	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	ATRNL1	http://www.ncbi.nlm.nih.gov/gene/26033	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009464	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	ATRX	http://www.ncbi.nlm.nih.gov/gene/546	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009465	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	ATXN1L	http://www.ncbi.nlm.nih.gov/gene/342371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009466	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009467	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	BTN2A2	http://www.ncbi.nlm.nih.gov/gene/10385	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009468	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	C1orf55	http://www.ncbi.nlm.nih.gov/gene/163859	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009469	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	C2orf18	http://www.ncbi.nlm.nih.gov/gene/54978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009470	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	C8orf44	http://www.ncbi.nlm.nih.gov/gene/56260	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009471	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	CA13	http://www.ncbi.nlm.nih.gov/gene/377677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009472	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	CDC42EP4	http://www.ncbi.nlm.nih.gov/gene/23580	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009473	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	CEBPB	http://www.ncbi.nlm.nih.gov/gene/1051	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009474	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	CLUAP1	http://www.ncbi.nlm.nih.gov/gene/23059	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009475	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	CTTNBP2NL	http://www.ncbi.nlm.nih.gov/gene/55917	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009476	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	CUX1	http://www.ncbi.nlm.nih.gov/gene/1523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009477	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	CYB561D1	http://www.ncbi.nlm.nih.gov/gene/284613	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009478	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	DFFA	http://www.ncbi.nlm.nih.gov/gene/1676	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009479	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	EGLN1	http://www.ncbi.nlm.nih.gov/gene/54583	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009480	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	FAM105A	http://www.ncbi.nlm.nih.gov/gene/54491	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009481	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	FAM133A	http://www.ncbi.nlm.nih.gov/gene/286499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009482	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	FBXO48	http://www.ncbi.nlm.nih.gov/gene/554251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009483	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	FEM1B	http://www.ncbi.nlm.nih.gov/gene/10116	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009484	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	FEM1C	http://www.ncbi.nlm.nih.gov/gene/56929	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009485	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	FITM2	http://www.ncbi.nlm.nih.gov/gene/128486	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009486	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	FNTB	http://www.ncbi.nlm.nih.gov/gene/2342	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009487	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	FOSL2	http://www.ncbi.nlm.nih.gov/gene/2355	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009488	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	GALT	http://www.ncbi.nlm.nih.gov/gene/2592	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009489	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	GYG1	http://www.ncbi.nlm.nih.gov/gene/2992	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009490	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	IL17RB	http://www.ncbi.nlm.nih.gov/gene/55540	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009491	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	IRF2BP2	http://www.ncbi.nlm.nih.gov/gene/359948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009492	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	KBTBD11	http://www.ncbi.nlm.nih.gov/gene/9920	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009493	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	KBTBD2	http://www.ncbi.nlm.nih.gov/gene/25948	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009494	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	KIAA1462	http://www.ncbi.nlm.nih.gov/gene/57608	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009495	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	KLHDC5	http://www.ncbi.nlm.nih.gov/gene/57542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009496	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	LCORL	http://www.ncbi.nlm.nih.gov/gene/254251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009497	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	LDLRAP1	http://www.ncbi.nlm.nih.gov/gene/26119	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009498	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	LIG4	http://www.ncbi.nlm.nih.gov/gene/3981	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009499	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	LNX2	http://www.ncbi.nlm.nih.gov/gene/222484	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009500	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	LRRC8B	http://www.ncbi.nlm.nih.gov/gene/23507	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009501	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	MAP3K14	http://www.ncbi.nlm.nih.gov/gene/9020	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009502	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	MAP3K7IP2	http://www.ncbi.nlm.nih.gov/gene/23118 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009503	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	MDM2	http://www.ncbi.nlm.nih.gov/gene/4193	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009504	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	MEX3C	http://www.ncbi.nlm.nih.gov/gene/51320	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009505	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	MIDN	http://www.ncbi.nlm.nih.gov/gene/90007	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009506	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	MIER1	http://www.ncbi.nlm.nih.gov/gene/57708	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009507	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	MITF	http://www.ncbi.nlm.nih.gov/gene/4286	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009508	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	MOCS2	http://www.ncbi.nlm.nih.gov/gene/4338	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009509	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	MPP5	http://www.ncbi.nlm.nih.gov/gene/64398	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009510	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	MYB	http://www.ncbi.nlm.nih.gov/gene/4602	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009511	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	NARS	http://www.ncbi.nlm.nih.gov/gene/4677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009512	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	NDFIP1	http://www.ncbi.nlm.nih.gov/gene/80762	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009513	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	NHLRC2	http://www.ncbi.nlm.nih.gov/gene/374354	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009514	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	PDCD4	http://www.ncbi.nlm.nih.gov/gene/27250	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009515	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	PDE12	http://www.ncbi.nlm.nih.gov/gene/201626	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009516	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	PHF17	http://www.ncbi.nlm.nih.gov/gene/79960	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009517	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	PKN2	http://www.ncbi.nlm.nih.gov/gene/5586	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009518	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	PLEKHB2	http://www.ncbi.nlm.nih.gov/gene/55041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009519	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	POU2F1	http://www.ncbi.nlm.nih.gov/gene/5451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009520	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	PPIL2	http://www.ncbi.nlm.nih.gov/gene/23759	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009521	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	PTAR1	http://www.ncbi.nlm.nih.gov/gene/375743	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009522	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	RCHY1	http://www.ncbi.nlm.nih.gov/gene/25898	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009523	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	RGP1	http://www.ncbi.nlm.nih.gov/gene/9827	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009524	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	RUFY2	http://www.ncbi.nlm.nih.gov/gene/55680	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009525	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	SAP30L	http://www.ncbi.nlm.nih.gov/gene/79685	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009526	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	SKIV2L2	http://www.ncbi.nlm.nih.gov/gene/23517	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009527	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	SLC12A6	http://www.ncbi.nlm.nih.gov/gene/9990	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009528	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	SLC35F2	http://www.ncbi.nlm.nih.gov/gene/54733	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009529	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	SOCS5	http://www.ncbi.nlm.nih.gov/gene/9655	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009530	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	SP3	http://www.ncbi.nlm.nih.gov/gene/6670	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009531	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	STAG2	http://www.ncbi.nlm.nih.gov/gene/10735	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009532	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	STARD5	http://www.ncbi.nlm.nih.gov/gene/80765	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009533	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	TMEM33	http://www.ncbi.nlm.nih.gov/gene/55161	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009534	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009535	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	TRIM32	http://www.ncbi.nlm.nih.gov/gene/22954	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009536	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	TRIM36	http://www.ncbi.nlm.nih.gov/gene/55521	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009537	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	TRIM44	http://www.ncbi.nlm.nih.gov/gene/54765	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009538	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	TRIP13	http://www.ncbi.nlm.nih.gov/gene/9319	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009539	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	TSPAN5	http://www.ncbi.nlm.nih.gov/gene/10098	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009540	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	TWF1	http://www.ncbi.nlm.nih.gov/gene/5756	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009541	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	UBXN2B	http://www.ncbi.nlm.nih.gov/gene/137886	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009542	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	UQCRB	http://www.ncbi.nlm.nih.gov/gene/442454	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009543	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	VCPIP1	http://www.ncbi.nlm.nih.gov/gene/80124	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009544	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	VMA21	http://www.ncbi.nlm.nih.gov/gene/203547	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009545	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	VPS36	http://www.ncbi.nlm.nih.gov/gene/51028	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009546	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	WDR72	http://www.ncbi.nlm.nih.gov/gene/256764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009547	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	WDR82	http://www.ncbi.nlm.nih.gov/gene/80335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009548	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	WEE1	http://www.ncbi.nlm.nih.gov/gene/7465	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009549	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	XIAP	http://www.ncbi.nlm.nih.gov/gene/331	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009550	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	YIPF6	http://www.ncbi.nlm.nih.gov/gene/286451	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009551	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	ZBTB38	http://www.ncbi.nlm.nih.gov/gene/253461	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009552	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	ZNF254	http://www.ncbi.nlm.nih.gov/gene/9534	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009553	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	ZNF273	http://www.ncbi.nlm.nih.gov/gene/10793	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009554	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	ZNF431	http://www.ncbi.nlm.nih.gov/gene/170959	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009555	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	ZNF492	http://www.ncbi.nlm.nih.gov/gene/100130108	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009556	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	ZNF507	http://www.ncbi.nlm.nih.gov/gene/22847	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009557	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	ZNF652	http://www.ncbi.nlm.nih.gov/gene/22834	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009558	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	ZNF701	http://www.ncbi.nlm.nih.gov/gene/55762	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009559	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	ZNF714	http://www.ncbi.nlm.nih.gov/gene/148206	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009560	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC-3	-	Host	mRNA	ZNF724P	http://www.ncbi.nlm.nih.gov/gene/440519	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009561	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	AGTR1	http://www.ncbi.nlm.nih.gov/gene/185	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009562	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	AICDA	http://www.ncbi.nlm.nih.gov/gene/57379	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009563	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	APAF1	http://www.ncbi.nlm.nih.gov/gene/317	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009564	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ARFIP1	http://www.ncbi.nlm.nih.gov/gene/27236	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009565	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ARID2	http://www.ncbi.nlm.nih.gov/gene/196528	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009566	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ARL15	http://www.ncbi.nlm.nih.gov/gene/54622	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009567	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ARL6IP5	http://www.ncbi.nlm.nih.gov/gene/10550	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009568	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ARMC2	http://www.ncbi.nlm.nih.gov/gene/84071	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009569	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ARNTL	http://www.ncbi.nlm.nih.gov/gene/406	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009570	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ARPC3	http://www.ncbi.nlm.nih.gov/gene/729494	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009571	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009572	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	C10ORF104		-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009573	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	C10ORF26	http://www.ncbi.nlm.nih.gov/gene/54838	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009574	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	C16orf62	http://www.ncbi.nlm.nih.gov/gene/57020	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009575	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	C1ORF103		-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009576	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	C2orf3	http://www.ncbi.nlm.nih.gov/gene/6936	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009577	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	C3ORF18	http://www.ncbi.nlm.nih.gov/gene/51161	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009578	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	C5ORF44		-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009579	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	CARD10	http://www.ncbi.nlm.nih.gov/gene/29775	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009580	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	CARHSP1	http://www.ncbi.nlm.nih.gov/gene/23589	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009581	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	CCDC41	http://www.ncbi.nlm.nih.gov/gene/51134	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009582	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	CCDC82	http://www.ncbi.nlm.nih.gov/gene/79780	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009583	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	CCR9	http://www.ncbi.nlm.nih.gov/gene/10803	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009584	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	CDH6	http://www.ncbi.nlm.nih.gov/gene/1004	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009585	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	CDKN1B	http://www.ncbi.nlm.nih.gov/gene/1027	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009586	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	CEBPB	http://www.ncbi.nlm.nih.gov/gene/1051	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009587	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	CHD9	http://www.ncbi.nlm.nih.gov/gene/80205	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009588	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	CIAPIN1	http://www.ncbi.nlm.nih.gov/gene/57019	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009589	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	CLUAP1	http://www.ncbi.nlm.nih.gov/gene/23059	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009590	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	CSF1R	http://www.ncbi.nlm.nih.gov/gene/1436	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009591	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	CSNK1A1	http://www.ncbi.nlm.nih.gov/gene/1452	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009592	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	CUX1	http://www.ncbi.nlm.nih.gov/gene/1523	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009593	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	CYP2U1	http://www.ncbi.nlm.nih.gov/gene/113612	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009594	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	DCUN1D2	http://www.ncbi.nlm.nih.gov/gene/55208	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009595	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	DET1	http://www.ncbi.nlm.nih.gov/gene/55070	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009596	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	DHX40	http://www.ncbi.nlm.nih.gov/gene/100134387	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009597	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	E2F2	http://www.ncbi.nlm.nih.gov/gene/1870	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009598	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	EIF2C4	http://www.ncbi.nlm.nih.gov/gene/192670	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009599	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ETS1	http://www.ncbi.nlm.nih.gov/gene/2113	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009600	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	EXOSC2	http://www.ncbi.nlm.nih.gov/gene/23404	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009601	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	FAM135A	http://www.ncbi.nlm.nih.gov/gene/57579	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009602	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	FAM164C	http://www.ncbi.nlm.nih.gov/gene/79696	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009603	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	FAM177A1	http://www.ncbi.nlm.nih.gov/gene/283635	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009604	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	FAM199X	http://www.ncbi.nlm.nih.gov/gene/139231	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009605	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	FAM91A1	http://www.ncbi.nlm.nih.gov/gene/157769	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009606	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	FOS	http://www.ncbi.nlm.nih.gov/gene/2353	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009607	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	FOXO3	http://www.ncbi.nlm.nih.gov/gene/2310	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009608	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	GABARAPL1	http://www.ncbi.nlm.nih.gov/gene/23710	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009609	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	GATM	http://www.ncbi.nlm.nih.gov/gene/2628	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009610	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	GOLT1B	http://www.ncbi.nlm.nih.gov/gene/51026	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009611	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	HAL	http://www.ncbi.nlm.nih.gov/gene/3034	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009612	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	HBP1	http://www.ncbi.nlm.nih.gov/gene/26959	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009613	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	HIF1A	http://www.ncbi.nlm.nih.gov/gene/3091	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009614	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	HIVEP2	http://www.ncbi.nlm.nih.gov/gene/3097	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009615	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	IKBKE	http://www.ncbi.nlm.nih.gov/gene/9641	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009616	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	IKIP	http://www.ncbi.nlm.nih.gov/gene/121457 	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009617	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	IL17RB	http://www.ncbi.nlm.nih.gov/gene/55540	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009618	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	INPP5D	http://www.ncbi.nlm.nih.gov/gene/3635	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009619	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	INPP5F	http://www.ncbi.nlm.nih.gov/gene/22876	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009620	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	INTS6	http://www.ncbi.nlm.nih.gov/gene/26512	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009621	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	JARID2	http://www.ncbi.nlm.nih.gov/gene/3720	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009622	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	KBTBD2	http://www.ncbi.nlm.nih.gov/gene/25948	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009623	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	KIAA0430	http://www.ncbi.nlm.nih.gov/gene/9665	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009624	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	KIAA1274	http://www.ncbi.nlm.nih.gov/gene/27143	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009625	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	KLHL5	http://www.ncbi.nlm.nih.gov/gene/51088	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009626	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	KLRA1	http://www.ncbi.nlm.nih.gov/gene/10748	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009627	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	KRCC1	http://www.ncbi.nlm.nih.gov/gene/51315	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009628	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	LCORL	http://www.ncbi.nlm.nih.gov/gene/254251	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009629	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	LDOC1	http://www.ncbi.nlm.nih.gov/gene/23641	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009630	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	LIN7C	http://www.ncbi.nlm.nih.gov/gene/55327	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009631	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	LNX2	http://www.ncbi.nlm.nih.gov/gene/222484	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009632	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	LRP1B	http://www.ncbi.nlm.nih.gov/gene/53353	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009633	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	LRRC59	http://www.ncbi.nlm.nih.gov/gene/55379	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009634	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	LSM14A	http://www.ncbi.nlm.nih.gov/gene/26065	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009635	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MAF	http://www.ncbi.nlm.nih.gov/gene/4094	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009636	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MAP3K10	http://www.ncbi.nlm.nih.gov/gene/4294	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009637	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MAP3K7IP2	http://www.ncbi.nlm.nih.gov/gene/23118 	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009638	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MASTL	http://www.ncbi.nlm.nih.gov/gene/84930	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009639	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MATR3	http://www.ncbi.nlm.nih.gov/gene/9782	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009640	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MCM8	http://www.ncbi.nlm.nih.gov/gene/84515	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009641	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MED13L	http://www.ncbi.nlm.nih.gov/gene/23389	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009642	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MEF2A	http://www.ncbi.nlm.nih.gov/gene/4205	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009643	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MITF	http://www.ncbi.nlm.nih.gov/gene/4286	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009644	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MLH1	http://www.ncbi.nlm.nih.gov/gene/4292	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009645	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MORC3	http://www.ncbi.nlm.nih.gov/gene/23515	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009646	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MPP5	http://www.ncbi.nlm.nih.gov/gene/64398	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009647	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MRPL18	http://www.ncbi.nlm.nih.gov/gene/29074	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009648	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MSH2	http://www.ncbi.nlm.nih.gov/gene/4436	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009649	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MYD88	http://www.ncbi.nlm.nih.gov/gene/4615	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009650	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MYLK	http://www.ncbi.nlm.nih.gov/gene/4638	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009651	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MYO10	http://www.ncbi.nlm.nih.gov/gene/4651	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009652	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	MYO1D	http://www.ncbi.nlm.nih.gov/gene/4642	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009653	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	NARS	http://www.ncbi.nlm.nih.gov/gene/4677	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009654	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	NKX3-1	http://www.ncbi.nlm.nih.gov/gene/4824	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009655	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	PAK2	http://www.ncbi.nlm.nih.gov/gene/5062	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009656	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	PCDH9	http://www.ncbi.nlm.nih.gov/gene/5101	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009657	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	PDCD4	http://www.ncbi.nlm.nih.gov/gene/27250	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009658	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	PHC2	http://www.ncbi.nlm.nih.gov/gene/1912	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009659	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	PHF14	http://www.ncbi.nlm.nih.gov/gene/9678	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009660	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	PICALM	http://www.ncbi.nlm.nih.gov/gene/8301	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009661	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	PIK3CA	http://www.ncbi.nlm.nih.gov/gene/5290	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009662	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	PKN2	http://www.ncbi.nlm.nih.gov/gene/5586	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009663	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	PLS1	http://www.ncbi.nlm.nih.gov/gene/5357	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009664	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	POLE3	http://www.ncbi.nlm.nih.gov/gene/54107	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009665	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	PRKAR1A	http://www.ncbi.nlm.nih.gov/gene/5573	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009666	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	RAB11FIP2	http://www.ncbi.nlm.nih.gov/gene/22841	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009667	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	RAPGEF2	http://www.ncbi.nlm.nih.gov/gene/9693	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009668	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	RFK	http://www.ncbi.nlm.nih.gov/gene/55312	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009669	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	RHEB	http://www.ncbi.nlm.nih.gov/gene/6009	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009670	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	RNF123	http://www.ncbi.nlm.nih.gov/gene/63891	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009671	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	RPS6KA3	http://www.ncbi.nlm.nih.gov/gene/6197	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009672	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	RUNX2	http://www.ncbi.nlm.nih.gov/gene/860	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009673	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	SAMHD1	http://www.ncbi.nlm.nih.gov/gene/25939	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009674	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	SAP30L	http://www.ncbi.nlm.nih.gov/gene/79685	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009675	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	SDCBP	http://www.ncbi.nlm.nih.gov/gene/6386	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009676	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	SECISBP2	http://www.ncbi.nlm.nih.gov/gene/79048	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009677	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	SLA	http://www.ncbi.nlm.nih.gov/gene/6503	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009678	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	SMAD1	http://www.ncbi.nlm.nih.gov/gene/4086	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009679	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	SMAD2	http://www.ncbi.nlm.nih.gov/gene/4087	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009680	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	SMAD5	http://www.ncbi.nlm.nih.gov/gene/4090	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009681	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	SMARCA4	http://www.ncbi.nlm.nih.gov/gene/6597	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009682	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	SOCS1	http://www.ncbi.nlm.nih.gov/gene/8651	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009683	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	SPI1	http://www.ncbi.nlm.nih.gov/gene/6688	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009684	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	TAB2	http://www.ncbi.nlm.nih.gov/gene/23118	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009685	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	TAF5L	http://www.ncbi.nlm.nih.gov/gene/27097	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009686	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	TBC1D8B	http://www.ncbi.nlm.nih.gov/gene/54885	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009687	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	TBCA	http://www.ncbi.nlm.nih.gov/gene/6902	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009688	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	TCF12	http://www.ncbi.nlm.nih.gov/gene/6938	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009689	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	THSZ3	#	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009690	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	TLE4	http://www.ncbi.nlm.nih.gov/gene/7091	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009691	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	TM6SF1	http://www.ncbi.nlm.nih.gov/gene/53346	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009692	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009693	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	TRIP13	http://www.ncbi.nlm.nih.gov/gene/9319	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009694	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	TSGA14	http://www.ncbi.nlm.nih.gov/gene/95681	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009695	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	TWF1	http://www.ncbi.nlm.nih.gov/gene/5756	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009696	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	UBQLN1	http://www.ncbi.nlm.nih.gov/gene/29979	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009697	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	UPF2	http://www.ncbi.nlm.nih.gov/gene/26019	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009698	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	VPS18	http://www.ncbi.nlm.nih.gov/gene/57617	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009699	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	WEE1	http://www.ncbi.nlm.nih.gov/gene/7465	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009700	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	WHSC1L1	http://www.ncbi.nlm.nih.gov/gene/54904	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009701	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	WWC1	http://www.ncbi.nlm.nih.gov/gene/23286	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009702	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	XAF1	http://www.ncbi.nlm.nih.gov/gene/54739	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009703	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ZIC3	http://www.ncbi.nlm.nih.gov/gene/7547	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009704	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ZKSCAN5	http://www.ncbi.nlm.nih.gov/gene/23660	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009705	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ZNF254	http://www.ncbi.nlm.nih.gov/gene/9534	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009706	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ZNF257	http://www.ncbi.nlm.nih.gov/gene/113835	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009707	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ZNF273	http://www.ncbi.nlm.nih.gov/gene/10793	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009708	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ZNF28	http://www.ncbi.nlm.nih.gov/gene/7576	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009709	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ZNF493	http://www.ncbi.nlm.nih.gov/gene/284443	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009710	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ZNF561	http://www.ncbi.nlm.nih.gov/gene/729648	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009711	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ZNF611	http://www.ncbi.nlm.nih.gov/gene/81856	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009712	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ZNF652	http://www.ncbi.nlm.nih.gov/gene/22834	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009713	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BC1/3	-	Host	mRNA	ZNF83	http://www.ncbi.nlm.nih.gov/gene/55769	-	PAR-CLIP.	22100165	Table S7 Recovery of published miR-155 3'UTR targets as targets of miR-K11 by PAR-CLIP.
VHID00009714	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	ACTR10	http://www.ncbi.nlm.nih.gov/gene/55860	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009715	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	ATP6V1C1	http://www.ncbi.nlm.nih.gov/gene/528	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009716	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	ATP6V1G1	http://www.ncbi.nlm.nih.gov/gene/9550	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009717	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	AUH	http://www.ncbi.nlm.nih.gov/gene/549	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009718	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	BMP2K	http://www.ncbi.nlm.nih.gov/gene/55589	-	PAR-CLIP.	22100165	Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009719	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	CCT2	http://www.ncbi.nlm.nih.gov/gene/10576	-	PAR-CLIP.	22100165	Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009720	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	CD59	http://www.ncbi.nlm.nih.gov/gene/966	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009721	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	CDC42EP4	http://www.ncbi.nlm.nih.gov/gene/23580	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009722	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	CLCN5	http://www.ncbi.nlm.nih.gov/gene/1184	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009723	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	COX11	http://www.ncbi.nlm.nih.gov/gene/1353	-	PAR-CLIP.	22100165	Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009724	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	DMTF1	http://www.ncbi.nlm.nih.gov/gene/9988	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009725	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	E2F2	http://www.ncbi.nlm.nih.gov/gene/1870	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009726	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	EHD1	http://www.ncbi.nlm.nih.gov/gene/10938	-	PAR-CLIP.	22100165	Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009727	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	FEM1C	http://www.ncbi.nlm.nih.gov/gene/56929	-	PAR-CLIP.	22100165	Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009728	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	FOS	http://www.ncbi.nlm.nih.gov/gene/2353	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009729	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	GALT	http://www.ncbi.nlm.nih.gov/gene/2592	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009730	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	GPSM2	http://www.ncbi.nlm.nih.gov/gene/29899	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009731	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	HMGCS1	http://www.ncbi.nlm.nih.gov/gene/3157	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009732	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	IGSF11	http://www.ncbi.nlm.nih.gov/gene/152404	-	PAR-CLIP.	22100165	Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009733	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	KBTBD2	http://www.ncbi.nlm.nih.gov/gene/25948	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009734	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	KIFC2	http://www.ncbi.nlm.nih.gov/gene/90990	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009735	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	KLHL8	http://www.ncbi.nlm.nih.gov/gene/57563	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009736	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	LIG4	http://www.ncbi.nlm.nih.gov/gene/3981	-	PAR-CLIP.	22100165	Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009737	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	MAP3K7IP2	http://www.ncbi.nlm.nih.gov/gene/23118 	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009738	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	MOCS2	http://www.ncbi.nlm.nih.gov/gene/4338	-	PAR-CLIP.	22100165	Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009739	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	MYB	http://www.ncbi.nlm.nih.gov/gene/4602	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009740	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	MYD88	http://www.ncbi.nlm.nih.gov/gene/4615	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009741	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	NARS	http://www.ncbi.nlm.nih.gov/gene/4677	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009742	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	NDFIP1	http://www.ncbi.nlm.nih.gov/gene/80762	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009743	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	NFIA	http://www.ncbi.nlm.nih.gov/gene/4774	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009744	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009745	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	NR1D2	http://www.ncbi.nlm.nih.gov/gene/9975	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009746	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	OSTM1	http://www.ncbi.nlm.nih.gov/gene/28962	-	PAR-CLIP.	22100165	Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009747	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	PCDHB10	http://www.ncbi.nlm.nih.gov/gene/56126	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009748	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	PET112L	http://www.ncbi.nlm.nih.gov/gene/5188	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009749	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	PICALM	http://www.ncbi.nlm.nih.gov/gene/8301	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009750	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	PLEKHB2	http://www.ncbi.nlm.nih.gov/gene/55041	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009751	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	PNPT1	http://www.ncbi.nlm.nih.gov/gene/87178	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009752	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	PPIL2	http://www.ncbi.nlm.nih.gov/gene/23759	-	PAR-CLIP.	22100165	Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009753	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	PSKH1	http://www.ncbi.nlm.nih.gov/gene/5681	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009754	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	PTPN11	http://www.ncbi.nlm.nih.gov/gene/344593	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009755	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	PTPRJ	http://www.ncbi.nlm.nih.gov/gene/5795	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009756	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	RAPGEF2	http://www.ncbi.nlm.nih.gov/gene/9693	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009757	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	RFK	http://www.ncbi.nlm.nih.gov/gene/55312	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009758	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	RGL1	http://www.ncbi.nlm.nih.gov/gene/23179	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009759	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	SMAD5	http://www.ncbi.nlm.nih.gov/gene/4090	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009760	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	SNRPN	http://www.ncbi.nlm.nih.gov/gene/8926	-	PAR-CLIP.	22100165	Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009761	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	STRN3	http://www.ncbi.nlm.nih.gov/gene/29966	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009762	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	TCF12	http://www.ncbi.nlm.nih.gov/gene/6938	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009763	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	TCF7L2	http://www.ncbi.nlm.nih.gov/gene/6934	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009764	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	TMEM33	http://www.ncbi.nlm.nih.gov/gene/55161	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009765	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	TPD52	http://www.ncbi.nlm.nih.gov/gene/7163	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009766	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	TRAM1	http://www.ncbi.nlm.nih.gov/gene/23471	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009767	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	TRIP13	http://www.ncbi.nlm.nih.gov/gene/9319	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009768	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	TRUB1	http://www.ncbi.nlm.nih.gov/gene/142940	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009769	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	TXNRD1	http://www.ncbi.nlm.nih.gov/gene/7296	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009770	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	UPF2	http://www.ncbi.nlm.nih.gov/gene/26019	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009771	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	VAMP3	http://www.ncbi.nlm.nih.gov/gene/9341	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009772	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	XPNPEP1	http://www.ncbi.nlm.nih.gov/gene/7511	-	PAR-CLIP.	22100165	Table S10F Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-3 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009773	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	BJAB/miR-K11 cells	-	Host	mRNA	ZNF621	http://www.ncbi.nlm.nih.gov/gene/285268	-	PAR-CLIP.	22100165	Table S10C Genes that contribute to the enrichments of PAR-CLIP targets of miR-K11 from BC-1 libraries in downregulated mRNAs in BJAB/miR-K11 cells.
VHID00009774	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	FOS	http://www.ncbi.nlm.nih.gov/gene/2353	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00009775	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	LDOC1	http://www.ncbi.nlm.nih.gov/gene/23641	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00009776	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	MAF	http://www.ncbi.nlm.nih.gov/gene/4094	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00009777	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	MAP3K10	http://www.ncbi.nlm.nih.gov/gene/4294	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00009778	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	MATR3	http://www.ncbi.nlm.nih.gov/gene/9782	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00009779	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	TM6SF1	http://www.ncbi.nlm.nih.gov/gene/53346	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00009780	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	BACH1	http://www.ncbi.nlm.nih.gov/gene/83990	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00009781	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	BACH1	http://www.ncbi.nlm.nih.gov/gene/83990	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00009782	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	CEBPB(C/EBPbeta)	http://www.ncbi.nlm.nih.gov/gene/1051	-	Luciferase assays,qRT-PCR.	21813606	Subsequent quantitative PCR analyses of these splenic B cells revealed that C/EBPbeta, a transcriptional regulator of interleukin-6 that is linked to B-cell lymphoproliferative disorders, is downregulated when either miR-K12-11 or miR-155 is ectopically expressed.
VHID00009783	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	CSNK1A1	http://www.ncbi.nlm.nih.gov/gene/1452	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009784	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	DUSP1	http://www.ncbi.nlm.nih.gov/gene/1843	Upregulation	Luciferase reporter assays.	23097457	Finally, proof-of-principle experiments revealed that pharmacologic upregulation of DUSP1 inhibits the induction of promigratory factors and cell invasiveness duringde novoKSHV infection. These data reveal an indirect role for miR-K12-11 in the regulation of DUSP1 and downstream pathogenesis.miR-K12-11 induces endothelial cell invasion through indirect transcriptional repression of DUSP1.
VHID00009785	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	IKBKE	http://www.ncbi.nlm.nih.gov/gene/9641	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00009786	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	IKK?	http://www.ncbi.nlm.nih.gov/gene/9641	Downregulation	In vitro expression reporter assay, qRT-PCR, Plaque assay.	21221132	Ectopic expression of miR-K12-11 resulted in decreased IKK expression, while inhibition of miR-K12-11 was found to restore IKK expression in KSHV-infected cells.
VHID00009787	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	MAF	http://www.ncbi.nlm.nih.gov/gene/4094	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00009788	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	MAF1	http://www.ncbi.nlm.nih.gov/gene/84232	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00009789	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	SLC7A11(xCT)	http://www.ncbi.nlm.nih.gov/gene/23657	Upregulation	Luciferase reporter assays, Immunofluorescence assays.	23097457	We found that ERK-dependent latent viral gene expression, the induction of promigratory factors, and cell invasiveness followingde novoinfection of primary human endothelial cells are in part dependent on KSHV suppression of DUSP1 expression duringde novoinfection.KSHV-encoded miR-K12-11 upregulates the expression of xCT (an amino acid transporter and KSHV fusion/entry receptor), and existing data indicate a role for xCT in the regulation of 14-3-3 , a transcriptional repressor of DUSP1.
VHID00009790	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00009791	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	WEE1	http://www.ncbi.nlm.nih.gov/gene/7465	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009792	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	XAF1(BIRC4BP)	http://www.ncbi.nlm.nih.gov/gene/54739	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009793	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	AGTRAP	http://www.ncbi.nlm.nih.gov/gene/57085	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009794	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009795	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	Downregulation	-	19158788	An extreme example of this is seen with the KSHV miRNA miR-K12-11, which shares an identical seed region with the cellular miRNA miR-155 and appears to downregulate an identical, or nearly identical, set of target mRNAs. The most fully characterized of these is the mRNA encoding BACH1, which contains several targets for both miR-K12-11 and miR-155 in its 3'UTR. .
VHID00009796	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	BCL2L11	http://www.ncbi.nlm.nih.gov/gene/10018	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009797	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	CEBPB	http://www.ncbi.nlm.nih.gov/gene/1051	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009798	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	FOS	http://www.ncbi.nlm.nih.gov/gene/2353	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009799	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	HIVEP2	http://www.ncbi.nlm.nih.gov/gene/3097	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009800	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	IKBKE	http://www.ncbi.nlm.nih.gov/gene/9641	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009801	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	LDOC1	http://www.ncbi.nlm.nih.gov/gene/23641	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009802	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	MAF	http://www.ncbi.nlm.nih.gov/gene/4094	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009803	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	MAP3K10	http://www.ncbi.nlm.nih.gov/gene/4294	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009804	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	PIK3CA	http://www.ncbi.nlm.nih.gov/gene/5290	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009805	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	RFK	http://www.ncbi.nlm.nih.gov/gene/55312	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009806	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	RPS6KA3	http://www.ncbi.nlm.nih.gov/gene/6197	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009807	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	SAMHD1	http://www.ncbi.nlm.nih.gov/gene/25939	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009808	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	SLA	http://www.ncbi.nlm.nih.gov/gene/6503	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009809	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	SMAD5	http://www.ncbi.nlm.nih.gov/gene/4090	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009810	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VHID00009811	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	TM6SF1	http://www.ncbi.nlm.nih.gov/gene/53346	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009812	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	TWF1	http://www.ncbi.nlm.nih.gov/gene/5756	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009813	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	XAF1(BIRC4BP)	http://www.ncbi.nlm.nih.gov/gene/54739	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009814	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	mRNA	ZCCHC5(MART3)	http://www.ncbi.nlm.nih.gov/gene/203430	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009815	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	293 Cells	-	Host	Protein	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	Luciferase de-repression assay.	17500590	We performed luciferase de-repression assays by co-transfection of the THBS1 3'UTR reporter and 2'OMe RNAs specific to individual KSHV miRNAs. Our results demonstrate that THBS1 is targeted by multiple KSHV miRNAs; in particular, miR-K12-1, miR-K12-3-3p, miR-K12-6-3p, and miR-K12-11 lead to strong de-repression of the reporter.
VHID00009816	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	HeLa cells	-	Host	mRNA	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	Downregulation	Western Blot analyses, pNL-SIN-CMV-AcGFP, gene set enrichment analysis, Dual luciferase assays, quantitative RT-PCR analysis.	18075594	We show that expression of physiological levels of miR-K12-11 or miR-155 results in the downregulation of an extensive set of common mRNA target.For example, one predicted target for miR-155, BACH1, was only modestly downregulated at the mRNA level, but repression of the indicator bearing the BACH1 3oUTR was k85% for both miR-155 and miR-K12-11. To show that equivalent downregulation by miR-K12 11 and miR-155 also occurs with endogenous proteins, we performed Western Blot analyses for two targets, BACH1 and FOS.
VHID00009817	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	HeLa cells	-	Host	mRNA	FOS	http://www.ncbi.nlm.nih.gov/gene/2353	Downregulation	Western Blot analyses, pNL-SIN-CMV-AcGFP, gene set enrichment analysis, Dual luciferase assays, quantitative RT-PCR analysis.	18075594	We show that expression of physiological levels of miR-K12-11 or miR-155 results in the downregulation of an extensive set of common mRNA target.For example, one predicted target for miR-155, BACH1, was only modestly downregulated at the mRNA level, but repression of the indicator bearing the BACH1 3oUTR was k85% for both miR-155 and miR-K12-11. To show that equivalent downregulation by miR-K12 11 and miR-155 also occurs with endogenous proteins, we performed Western Blot analyses for two targets, BACH1 and FOS.
VHID00009818	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Lymphatic endothelial cells	-	Host	Protein	MAF	http://www.ncbi.nlm.nih.gov/gene/4094	Downregulation	qPCR and qRT-PCR, Western blotting, Luciferase reporter assays.	20080955	Site-directed mutagenesis of KSHV miRNA predicted target sites in the MAF 3'UTR abolished silencing, confirming that miR-K12-1, miR-K12-6-5p, and miR-K12-11 regulate MAF by interacting with the 3'UTR.
VHID00009819	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Lymphocytes	-	Host	Protein	BACH1	http://www.ncbi.nlm.nih.gov/gene/83990	-	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	KSHV miR-K12-11 shares sequence identity  with cellular miR-155 in the seed  region, which confers much of the target specificity, and has the potential to regulate multiple transcripts, in particular  BACH-1(BTB and CNC homology 1, a transcription  factor), via the same binding sites utilized by the host  miR-155.
VHID00009820	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Lymphocytes	-	Host	Protein	MAF	http://www.ncbi.nlm.nih.gov/gene/4094	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	miR-K12-1,-6, and -11 decrease of MAF(musculoaponeurotic fibrosarcoma oncogene  homolog), K12-4-5p targeting retinoblastoma(Rb)-like protein 2(Rbl2).
VHID00009821	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	Lymphocytes	-	Host	Protein	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	KSHV miR-K12-1, miR-K12-3-3p,  miR-K12-6-3p, and miR-K12-11 reduce the expression  of THBS1(thrombospondin 1) by interaction with the  THBS1 4' UTR.
VHID00009822	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC3	-	Host	mRNA	CDKN1A/p21	http://www.ncbi.nlm.nih.gov/gene/1026 	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009823	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC3	-	Host	mRNA	NHP2L1	http://www.ncbi.nlm.nih.gov/gene/4809	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009824	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BCBL1	-	Host	mRNA	CDKN1A/p21	http://www.ncbi.nlm.nih.gov/gene/1026 	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009825	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	ANP32A	http://www.ncbi.nlm.nih.gov/gene/8125	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009826	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	C1orf144	http://www.ncbi.nlm.nih.gov/gene/26099	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009827	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	CS	http://www.ncbi.nlm.nih.gov/gene/1431	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009828	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	LPIN1	http://www.ncbi.nlm.nih.gov/gene/23175	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009829	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	LYRM5	http://www.ncbi.nlm.nih.gov/gene/144363	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009830	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	NCOR1	http://www.ncbi.nlm.nih.gov/gene/9611	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009831	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	PPP1CB	http://www.ncbi.nlm.nih.gov/gene/245711	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009832	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	SP100	http://www.ncbi.nlm.nih.gov/gene/6672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009833	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	TMEM181	http://www.ncbi.nlm.nih.gov/gene/57583	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009834	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	VPS39	http://www.ncbi.nlm.nih.gov/gene/23339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009835	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ABL2	http://www.ncbi.nlm.nih.gov/gene/27	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009836	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ADCK1	http://www.ncbi.nlm.nih.gov/gene/57143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009837	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ALG1	http://www.ncbi.nlm.nih.gov/gene/56052	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009838	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ANP32A	http://www.ncbi.nlm.nih.gov/gene/8125	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009839	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	APOBEC3C	http://www.ncbi.nlm.nih.gov/gene/27350	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009840	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ATP9A	http://www.ncbi.nlm.nih.gov/gene/10079	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009841	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ATXN7L1	http://www.ncbi.nlm.nih.gov/gene/222255	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009842	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	BAG5	http://www.ncbi.nlm.nih.gov/gene/9529	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009843	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	C20orf117	http://www.ncbi.nlm.nih.gov/gene/140710	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009844	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	C9orf91	http://www.ncbi.nlm.nih.gov/gene/203197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009845	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	CCDC21	http://www.ncbi.nlm.nih.gov/gene/64793	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009846	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	CLPTM1L	http://www.ncbi.nlm.nih.gov/gene/81037	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009847	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	CS	http://www.ncbi.nlm.nih.gov/gene/1431	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009848	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	DCAKD	http://www.ncbi.nlm.nih.gov/gene/79877	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009849	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	DCBLD2	http://www.ncbi.nlm.nih.gov/gene/131566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009850	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	DHX36	http://www.ncbi.nlm.nih.gov/gene/170506	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009851	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ENPP4	http://www.ncbi.nlm.nih.gov/gene/22875	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009852	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	FRK	http://www.ncbi.nlm.nih.gov/gene/2444	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009853	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	GCNT2	http://www.ncbi.nlm.nih.gov/gene/2651	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009854	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	GNPNAT1	http://www.ncbi.nlm.nih.gov/gene/64841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009855	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	HNF4G	http://www.ncbi.nlm.nih.gov/gene/3174	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009856	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	IKZF3	http://www.ncbi.nlm.nih.gov/gene/22806	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009857	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	KIAA1147	http://www.ncbi.nlm.nih.gov/gene/57189	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009858	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	LYRM5	http://www.ncbi.nlm.nih.gov/gene/144363	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009859	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	MUC13	http://www.ncbi.nlm.nih.gov/gene/56667	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009860	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	MYO1D	http://www.ncbi.nlm.nih.gov/gene/4642	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009861	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	NCOR1	http://www.ncbi.nlm.nih.gov/gene/9611	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009862	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	PDE4D	http://www.ncbi.nlm.nih.gov/gene/5144	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009863	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	PPP1CB	http://www.ncbi.nlm.nih.gov/gene/245711	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009864	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	PRDM15	http://www.ncbi.nlm.nih.gov/gene/63977	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009865	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	PRKAR1A	http://www.ncbi.nlm.nih.gov/gene/5573	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009866	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	PYGO2	http://www.ncbi.nlm.nih.gov/gene/90780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009867	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	RASA2	http://www.ncbi.nlm.nih.gov/gene/5922	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009868	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	REEP5	http://www.ncbi.nlm.nih.gov/gene/7905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009869	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	SENP2	http://www.ncbi.nlm.nih.gov/gene/59343	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009870	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	SIKE1	http://www.ncbi.nlm.nih.gov/gene/80143	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009871	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	SLC30A7	http://www.ncbi.nlm.nih.gov/gene/148867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009872	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	SLC35D1	http://www.ncbi.nlm.nih.gov/gene/23169	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009873	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	SMAD4	http://www.ncbi.nlm.nih.gov/gene/4089	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009874	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	SP100	http://www.ncbi.nlm.nih.gov/gene/6672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009875	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	STRADA	http://www.ncbi.nlm.nih.gov/gene/92335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009876	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	TIMM17A	http://www.ncbi.nlm.nih.gov/gene/10440	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009877	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	TMEM126B	http://www.ncbi.nlm.nih.gov/gene/55863	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009878	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	TMEM189	http://www.ncbi.nlm.nih.gov/gene/387522	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009879	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	TMPO	http://www.ncbi.nlm.nih.gov/gene/7112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009880	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	TOR2A	http://www.ncbi.nlm.nih.gov/gene/27433	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009881	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	TRIM14	http://www.ncbi.nlm.nih.gov/gene/9830	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009882	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	TTC31	http://www.ncbi.nlm.nih.gov/gene/64427	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009883	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	VPS39	http://www.ncbi.nlm.nih.gov/gene/23339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009884	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	WHSC1L1	http://www.ncbi.nlm.nih.gov/gene/54904	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009885	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	WWTR1	http://www.ncbi.nlm.nih.gov/gene/25937	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009886	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	YBX1	http://www.ncbi.nlm.nih.gov/gene/4904	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009887	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ZDHHC7	http://www.ncbi.nlm.nih.gov/gene/55625	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009888	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ZFAND5	http://www.ncbi.nlm.nih.gov/gene/732229	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009889	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ZMAT2	http://www.ncbi.nlm.nih.gov/gene/153527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009890	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-3	-	Host	mRNA	ZNF12	http://www.ncbi.nlm.nih.gov/gene/7559	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009891	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	ARID1A	http://www.ncbi.nlm.nih.gov/gene/8289	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009892	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	ASXL1	http://www.ncbi.nlm.nih.gov/gene/171023	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009893	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	ATF7	http://www.ncbi.nlm.nih.gov/gene/11016	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009894	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	BAZ1B	http://www.ncbi.nlm.nih.gov/gene/9031	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009895	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	BIRC2	http://www.ncbi.nlm.nih.gov/gene/329	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009896	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	BSN	http://www.ncbi.nlm.nih.gov/gene/8927	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009897	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	C18orf25	http://www.ncbi.nlm.nih.gov/gene/147339	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009898	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	C19orf22	http://www.ncbi.nlm.nih.gov/gene/91300	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009899	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	C5orf15	http://www.ncbi.nlm.nih.gov/gene/56951	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009900	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	C5orf41	http://www.ncbi.nlm.nih.gov/gene/153222	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009901	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	C9orf91	http://www.ncbi.nlm.nih.gov/gene/203197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009902	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	CDADC1	http://www.ncbi.nlm.nih.gov/gene/81602	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009903	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	CDKN1A	http://www.ncbi.nlm.nih.gov/gene/1026	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009904	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	CLCN5	http://www.ncbi.nlm.nih.gov/gene/1184	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009905	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	CPEB4	http://www.ncbi.nlm.nih.gov/gene/80315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009906	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	DCAF7	http://www.ncbi.nlm.nih.gov/gene/10238	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009907	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	DCP1A	http://www.ncbi.nlm.nih.gov/gene/55802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009908	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	EXOSC3	http://www.ncbi.nlm.nih.gov/gene/51010	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009909	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	FBN1	http://www.ncbi.nlm.nih.gov/gene/2200	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009910	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	FLOT2	http://www.ncbi.nlm.nih.gov/gene/2319	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009911	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	FRS2	http://www.ncbi.nlm.nih.gov/gene/10818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009912	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	HNRNPAB	http://www.ncbi.nlm.nih.gov/gene/3182	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009913	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	IGF1R	http://www.ncbi.nlm.nih.gov/gene/3480	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009914	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	IGF2BP3	http://www.ncbi.nlm.nih.gov/gene/10643	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009915	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	IGF2R	http://www.ncbi.nlm.nih.gov/gene/3482	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009916	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	KDM2A	http://www.ncbi.nlm.nih.gov/gene/22992	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009917	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	KIAA0831	http://www.ncbi.nlm.nih.gov/gene/22863	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009918	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	LASS6	http://www.ncbi.nlm.nih.gov/gene/253782	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009919	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	MAFG	http://www.ncbi.nlm.nih.gov/gene/4097	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009920	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	MAP7D1	http://www.ncbi.nlm.nih.gov/gene/55700	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009921	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	MINK1	http://www.ncbi.nlm.nih.gov/gene/50488	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009922	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	MLL	http://www.ncbi.nlm.nih.gov/gene/4297	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009923	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	MTCH2	http://www.ncbi.nlm.nih.gov/gene/23788	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009924	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	NAB1	http://www.ncbi.nlm.nih.gov/gene/4664	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009925	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	NONO	http://www.ncbi.nlm.nih.gov/gene/4841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009926	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	OAS2	http://www.ncbi.nlm.nih.gov/gene/4939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009927	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	PHLDA3	http://www.ncbi.nlm.nih.gov/gene/23612	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009928	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	PISD	http://www.ncbi.nlm.nih.gov/gene/23761	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009929	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	PNPLA6	http://www.ncbi.nlm.nih.gov/gene/10908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009930	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	REST	http://www.ncbi.nlm.nih.gov/gene/5978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009931	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	RQCD1	http://www.ncbi.nlm.nih.gov/gene/9125	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009932	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	SDHAF1	http://www.ncbi.nlm.nih.gov/gene/644096	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009933	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	SETD5	http://www.ncbi.nlm.nih.gov/gene/55209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009934	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	SOX12	http://www.ncbi.nlm.nih.gov/gene/6666	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009935	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	TNKS	http://www.ncbi.nlm.nih.gov/gene/8658	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009936	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	WDR26	http://www.ncbi.nlm.nih.gov/gene/80232	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009937	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	WEE1	http://www.ncbi.nlm.nih.gov/gene/7465	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009938	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	WHSC1	http://www.ncbi.nlm.nih.gov/gene/7468	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009939	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	ZBTB34	http://www.ncbi.nlm.nih.gov/gene/403341	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009940	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	ZNF275	http://www.ncbi.nlm.nih.gov/gene/10838	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009941	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	ZNF451	http://www.ncbi.nlm.nih.gov/gene/26036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009942	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-12(miR-K12*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004987	BC-1	-	Host	mRNA	ZSWIM4	http://www.ncbi.nlm.nih.gov/gene/65249	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009943	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-2(K2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002476	BC3	-	Host	mRNA	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/731605	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009944	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC3	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009945	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC3	-	Host	mRNA	EXOC6	http://www.ncbi.nlm.nih.gov/gene/54536	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009946	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC3	-	Host	mRNA	LRRC8D	http://www.ncbi.nlm.nih.gov/gene/55144	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009947	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC3	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009948	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC3	-	Host	mRNA	NHP2L1	http://www.ncbi.nlm.nih.gov/gene/4809	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009949	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BCBL1	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009950	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BCBL1	-	Host	mRNA	EXOC6	http://www.ncbi.nlm.nih.gov/gene/54536	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009951	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BCBL1	-	Host	mRNA	LRRC8D	http://www.ncbi.nlm.nih.gov/gene/55144	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009952	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BCBL1	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009953	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BCBL1	-	Host	mRNA	NHP2L1	http://www.ncbi.nlm.nih.gov/gene/4809	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009954	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BCBL1	-	Host	mRNA	SLA	http://www.ncbi.nlm.nih.gov/gene/6503	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009955	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BCBL1	-	Host	mRNA	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009956	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(K3*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002194	BCBL1	-	Host	mRNA	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00009957	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(kshv-miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	Protein	NHP2L1	http://www.ncbi.nlm.nih.gov/gene/4809	-	3'UTR dual-luciferase assay.	20413099	We identified a high confidence interaction site for kshv-miR-K12-4-3p in the coding sequence of GEMIN8 and for kshv-miR-K12-3 in the coding sequence of NHP2L1.
VHID00009958	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(kshv-miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	Protein	NHP2L1	http://www.ncbi.nlm.nih.gov/gene/4809	Downregulation	3'UTR dual-luciferase assay.	20413099	We identified a high confidence interaction site for kshv-miR-K12-4-3p in the coding sequence of GEMIN8 and for kshv-miR-K12-3 in the coding sequence of NHP2L1.
VHID00009959	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	Protein	CEBPB	http://www.ncbi.nlm.nih.gov/gene/1051	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00009960	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	Protein	GEMIN8	http://www.ncbi.nlm.nih.gov/gene/54960	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009961	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	Protein	LIP	http://www.ncbi.nlm.nih.gov/gene/23049	Downregulation	KSHV miRNA target identification, ELISA, TLR inhibition assays, immunoblot analyses, Immunoblots, RT-PCR.	20052801	Subsequent immunoblot analyses revealed that miR-K12-3 and miR-K12-7 preferentially reduce expression of C/EBPbeta p20(LIP), an isoform of C/EBPbeta known to function as a negative transcription regulator.
VHID00009962	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	Protein	LRRC8D	http://www.ncbi.nlm.nih.gov/gene/55144	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00009963	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	Protein	LRRC8D	http://www.ncbi.nlm.nih.gov/gene/55144	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00009964	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	Protein	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00009965	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	Protein	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00009966	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	Protein	NHP2L1	http://www.ncbi.nlm.nih.gov/gene/4809	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00009967	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009968	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	mRNA	CEBPE(C/EBP)	http://www.ncbi.nlm.nih.gov/gene/1053	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VHID00009969	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00009970	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	DG-75-K10/12 cells	-	Host	Protein	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	Downregulation	Northern blot analysis, Real-time PCR, Luciferase assays, Small RNA cloning and sequencing, Western blot analysis.	22174674	We found that three KSHV miRNAs, miR-K12-1, 3 and 4-3p, were responsible for the targeting of Casp3.Potential cellular targets that were significantly down-regulated upon KSHV miRNAs expression were identified by microarray profiling.
VHID00009971	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	HEK293 cells	-	Host	Protein	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	Luciferase assays,quantitative PCR and western blotting.	22174674	we validated by luciferase reporter assays, quantitative PCR and western blotting caspase 3 (Casp3), a critical factor for the control of apoptosis. Using site-directed mutagenesis, we found that three KSHV miRNAs, miR-K12-1, 3 and 4-3p, were responsible for the targeting of Casp3. .
VHID00009972	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	Lymphocytes	-	Host	Protein	LRRC8D	http://www.ncbi.nlm.nih.gov/gene/55144	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	miR-K12-3 reduction of LRRC8D , a leucin-rich type III transmembrane protein involved in proliferation and activation of lymphocytes, NHP2L1 , and a transcription factor NFIB, .
VHID00009973	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	Lymphocytes	-	Host	Protein	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	Upregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	miR-K12-3 reduction of LRRC8D , a leucin-rich type III transmembrane protein involved in proliferation and activation of lymphocytes, NHP2L4 , and a transcription factor NFIB,.
VHID00009974	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	Lymphocytes	-	Host	Protein	NHP2L1	http://www.ncbi.nlm.nih.gov/gene/4809	Upregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	miR-K12-3 reduction of LRRC8D , a leucin-rich type III transmembrane protein involved in proliferation and activation of lymphocytes, NHP2L3 , and a transcription factor NFIB,.
VHID00009975	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	Protein	LRRC8D	http://www.ncbi.nlm.nih.gov/gene/55144	-	Modeling of possible hybrids, derepression assays by using a 20-O-methyl RNA complementary.	20413099	Modeling of possible hybrids between the LRRC8D 3'UTR and the KSHV-encoded miRNAs suggested a strong interaction of the 3'UTR with kshv-miR-K12-3.
VHID00009976	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	AKAP11	http://www.ncbi.nlm.nih.gov/gene/11215	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009977	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	ATRX	http://www.ncbi.nlm.nih.gov/gene/546	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009978	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	BLCAP	http://www.ncbi.nlm.nih.gov/gene/10904	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009979	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	BNIP2	http://www.ncbi.nlm.nih.gov/gene/663	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009980	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	BRCA1	http://www.ncbi.nlm.nih.gov/gene/672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009981	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	BRWD1	http://www.ncbi.nlm.nih.gov/gene/54014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009982	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	C10orf46	http://www.ncbi.nlm.nih.gov/gene/143384	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009983	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	C12orf76	http://www.ncbi.nlm.nih.gov/gene/400073	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009984	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	C18orf54	http://www.ncbi.nlm.nih.gov/gene/162681	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009985	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	C20orf112	http://www.ncbi.nlm.nih.gov/gene/140688	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009986	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	C2orf69	http://www.ncbi.nlm.nih.gov/gene/205327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009987	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	C3orf52	http://www.ncbi.nlm.nih.gov/gene/79669	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009988	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	C9orf5	http://www.ncbi.nlm.nih.gov/gene/23731	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009989	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	CAPRIN1	http://www.ncbi.nlm.nih.gov/gene/4076	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009990	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	CARD8	http://www.ncbi.nlm.nih.gov/gene/22900	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009991	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	CASP3	http://www.ncbi.nlm.nih.gov/gene/836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009992	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	CASP7	http://www.ncbi.nlm.nih.gov/gene/840	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009993	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	CCDC82	http://www.ncbi.nlm.nih.gov/gene/79780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009994	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	CCNL1	http://www.ncbi.nlm.nih.gov/gene/57018	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009995	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	CLDN12	http://www.ncbi.nlm.nih.gov/gene/9069	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009996	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	CNOT4	http://www.ncbi.nlm.nih.gov/gene/4850	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009997	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	CSNK1G3	http://www.ncbi.nlm.nih.gov/gene/1456	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009998	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	CTCF	http://www.ncbi.nlm.nih.gov/gene/10664	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00009999	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	DDX47	http://www.ncbi.nlm.nih.gov/gene/51202	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010000	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	EXOC6	http://www.ncbi.nlm.nih.gov/gene/54536	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010001	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	FOXP2	http://www.ncbi.nlm.nih.gov/gene/93986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010002	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	GATAD2B	http://www.ncbi.nlm.nih.gov/gene/57459	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010003	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	GTSE1	http://www.ncbi.nlm.nih.gov/gene/51512	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010004	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	HECTD3	http://www.ncbi.nlm.nih.gov/gene/79654	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010005	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	HIST1H3D	http://www.ncbi.nlm.nih.gov/gene/8356	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010006	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	HMGB2	http://www.ncbi.nlm.nih.gov/gene/3148	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010007	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	INO80	http://www.ncbi.nlm.nih.gov/gene/54617	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010008	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	JARID2	http://www.ncbi.nlm.nih.gov/gene/3720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010009	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	KDM6A	http://www.ncbi.nlm.nih.gov/gene/7403	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010010	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	KIAA1467	http://www.ncbi.nlm.nih.gov/gene/57613	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010011	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	KLHDC5	http://www.ncbi.nlm.nih.gov/gene/57542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010012	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	LIN54	http://www.ncbi.nlm.nih.gov/gene/132660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010013	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	LMBR1	http://www.ncbi.nlm.nih.gov/gene/64327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010014	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	MAK16	http://www.ncbi.nlm.nih.gov/gene/84549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010015	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	MED4	http://www.ncbi.nlm.nih.gov/gene/29079	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010016	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	NGLY1	http://www.ncbi.nlm.nih.gov/gene/55768	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010017	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	NUAK2	http://www.ncbi.nlm.nih.gov/gene/81788	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010018	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	NUCKS1	http://www.ncbi.nlm.nih.gov/gene/64710	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010019	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010020	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	PARD6B	http://www.ncbi.nlm.nih.gov/gene/84612	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010021	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	PI4KB	http://www.ncbi.nlm.nih.gov/gene/5298	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010022	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	PKIA	http://www.ncbi.nlm.nih.gov/gene/5569	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010023	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	PPM1K	http://www.ncbi.nlm.nih.gov/gene/152926	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010024	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	PPP1R12A	http://www.ncbi.nlm.nih.gov/gene/4659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010025	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	QSER1	http://www.ncbi.nlm.nih.gov/gene/79832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010026	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	RAB4A	http://www.ncbi.nlm.nih.gov/gene/5867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010027	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	RAD51AP1	http://www.ncbi.nlm.nih.gov/gene/10635	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010028	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	RCOR1	http://www.ncbi.nlm.nih.gov/gene/23186	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010029	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	RNF168	http://www.ncbi.nlm.nih.gov/gene/165918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010030	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	RPL31	http://www.ncbi.nlm.nih.gov/gene/653773	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010031	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	RPRD1A	http://www.ncbi.nlm.nih.gov/gene/55197	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010032	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	SACM1L	http://www.ncbi.nlm.nih.gov/gene/22908	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010033	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	SEC14L1	http://www.ncbi.nlm.nih.gov/gene/6397	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010034	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	SEC24C	http://www.ncbi.nlm.nih.gov/gene/9632	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010035	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	SERINC1	http://www.ncbi.nlm.nih.gov/gene/57515	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010036	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	SESN2	http://www.ncbi.nlm.nih.gov/gene/83667	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010037	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	SETD1B	http://www.ncbi.nlm.nih.gov/gene/23067	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010038	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	SLC25A36	http://www.ncbi.nlm.nih.gov/gene/55186	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010039	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	SLC37A3	http://www.ncbi.nlm.nih.gov/gene/84255	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010040	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	SLC38A2	http://www.ncbi.nlm.nih.gov/gene/54407	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010041	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	SLC7A1	http://www.ncbi.nlm.nih.gov/gene/6541	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010042	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	STAT5B	http://www.ncbi.nlm.nih.gov/gene/6777	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010043	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	STBD1	http://www.ncbi.nlm.nih.gov/gene/8987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010044	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	STX12	http://www.ncbi.nlm.nih.gov/gene/23673	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010045	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	STX6	http://www.ncbi.nlm.nih.gov/gene/10228	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010046	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	TBL1XR1	http://www.ncbi.nlm.nih.gov/gene/79718	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010047	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	TBR1	http://www.ncbi.nlm.nih.gov/gene/10716	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010048	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	THOC7	http://www.ncbi.nlm.nih.gov/gene/80145	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010049	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	TMEM50A	http://www.ncbi.nlm.nih.gov/gene/23585	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010050	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	TNFAIP3	http://www.ncbi.nlm.nih.gov/gene/7128	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010051	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	TNPO1	http://www.ncbi.nlm.nih.gov/gene/3842	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010052	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	TNRC6A	http://www.ncbi.nlm.nih.gov/gene/27327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010053	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	TNRC6B	http://www.ncbi.nlm.nih.gov/gene/23112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010054	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	TRIB1	http://www.ncbi.nlm.nih.gov/gene/10221	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010055	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	TSNAX	http://www.ncbi.nlm.nih.gov/gene/7257	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010056	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	TUSC2	http://www.ncbi.nlm.nih.gov/gene/11334	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010057	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	UBE2R2	http://www.ncbi.nlm.nih.gov/gene/54926	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010058	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	VKORC1L1	http://www.ncbi.nlm.nih.gov/gene/154807	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010059	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	VRK3	http://www.ncbi.nlm.nih.gov/gene/51231	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010060	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	WBP2	http://www.ncbi.nlm.nih.gov/gene/23558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010061	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	WNK1	http://www.ncbi.nlm.nih.gov/gene/65125	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010062	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	WRB	http://www.ncbi.nlm.nih.gov/gene/7485	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010063	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	YOD1	http://www.ncbi.nlm.nih.gov/gene/55432	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010064	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	ZNF473	http://www.ncbi.nlm.nih.gov/gene/25888	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010065	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	ZNF550	http://www.ncbi.nlm.nih.gov/gene/162972	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010066	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	ZNF588	http://www.ncbi.nlm.nih.gov/gene/51427	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010067	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-1	-	Host	mRNA	ZNF680	http://www.ncbi.nlm.nih.gov/gene/340252	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010068	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	ADRBK1	http://www.ncbi.nlm.nih.gov/gene/156	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010069	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	AGK	http://www.ncbi.nlm.nih.gov/gene/55750	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010070	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	ALG3	http://www.ncbi.nlm.nih.gov/gene/10195	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010071	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	ANKRD52	http://www.ncbi.nlm.nih.gov/gene/283373	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010072	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	BLCAP	http://www.ncbi.nlm.nih.gov/gene/10904	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010073	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	BRCA1	http://www.ncbi.nlm.nih.gov/gene/672	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010074	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	BRWD1	http://www.ncbi.nlm.nih.gov/gene/54014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010075	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	C18orf55	http://www.ncbi.nlm.nih.gov/gene/29090	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010076	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	C20orf117	http://www.ncbi.nlm.nih.gov/gene/140710	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010077	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	C21orf45	http://www.ncbi.nlm.nih.gov/gene/54069	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010078	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	C2orf69	http://www.ncbi.nlm.nih.gov/gene/205327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010079	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	C9orf5	http://www.ncbi.nlm.nih.gov/gene/23731	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010080	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	CAPRIN1	http://www.ncbi.nlm.nih.gov/gene/4076	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010081	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	CASP7	http://www.ncbi.nlm.nih.gov/gene/840	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010082	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	CBFA2T2	http://www.ncbi.nlm.nih.gov/gene/9139	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010083	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	CCNL1	http://www.ncbi.nlm.nih.gov/gene/57018	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010084	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	CNOT8	http://www.ncbi.nlm.nih.gov/gene/9337	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010085	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	COBL	http://www.ncbi.nlm.nih.gov/gene/23242	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010086	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	CPEB4	http://www.ncbi.nlm.nih.gov/gene/80315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010087	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	CPOX	http://www.ncbi.nlm.nih.gov/gene/1371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010088	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	CRLF3	http://www.ncbi.nlm.nih.gov/gene/51379	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010089	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	CTSC	http://www.ncbi.nlm.nih.gov/gene/1075	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010090	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	DBF4	http://www.ncbi.nlm.nih.gov/gene/10926	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010091	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	DEF8	http://www.ncbi.nlm.nih.gov/gene/54849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010092	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	DIP2B	http://www.ncbi.nlm.nih.gov/gene/57609	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010093	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	DIS3	http://www.ncbi.nlm.nih.gov/gene/22894	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010094	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	FBXO32	http://www.ncbi.nlm.nih.gov/gene/114907	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010095	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	FNIP1	http://www.ncbi.nlm.nih.gov/gene/96459	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010096	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	FOXP2	http://www.ncbi.nlm.nih.gov/gene/93986	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010097	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	GTSE1	http://www.ncbi.nlm.nih.gov/gene/51512	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010098	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	H2AFV	http://www.ncbi.nlm.nih.gov/gene/94239	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010099	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	HECTD3	http://www.ncbi.nlm.nih.gov/gene/79654	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010100	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	HMGB2	http://www.ncbi.nlm.nih.gov/gene/3148	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010101	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	JARID2	http://www.ncbi.nlm.nih.gov/gene/3720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010102	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	KDM6A	http://www.ncbi.nlm.nih.gov/gene/7403	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010103	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	KHSRP	http://www.ncbi.nlm.nih.gov/gene/8570	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010104	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	KIAA0494	http://www.ncbi.nlm.nih.gov/gene/9813	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010105	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	KIAA1826	http://www.ncbi.nlm.nih.gov/gene/84437	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010106	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	KSR1	http://www.ncbi.nlm.nih.gov/gene/8844	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010107	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	KTELC1	http://www.ncbi.nlm.nih.gov/gene/56983	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010108	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	LIN54	http://www.ncbi.nlm.nih.gov/gene/132660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010109	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	LTV1	http://www.ncbi.nlm.nih.gov/gene/100128319	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010110	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	MAK16	http://www.ncbi.nlm.nih.gov/gene/84549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010111	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	MBLAC2	http://www.ncbi.nlm.nih.gov/gene/153364	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010112	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	MET	http://www.ncbi.nlm.nih.gov/gene/4233	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010113	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	MIER1	http://www.ncbi.nlm.nih.gov/gene/57708	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010114	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	MTMR9	http://www.ncbi.nlm.nih.gov/gene/66036	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010115	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	MTUS1	http://www.ncbi.nlm.nih.gov/gene/57509	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010116	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	NDUFA7	http://www.ncbi.nlm.nih.gov/gene/4701	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010117	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	ORMDL3	http://www.ncbi.nlm.nih.gov/gene/94103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010118	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	PDE7A	http://www.ncbi.nlm.nih.gov/gene/5150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010119	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	PI4KB	http://www.ncbi.nlm.nih.gov/gene/5298	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010120	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	PKIA	http://www.ncbi.nlm.nih.gov/gene/5569	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010121	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	PPAT	http://www.ncbi.nlm.nih.gov/gene/5471	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010122	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	PPIF	http://www.ncbi.nlm.nih.gov/gene/10105	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010123	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	PPP1R12A	http://www.ncbi.nlm.nih.gov/gene/4659	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010124	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	RAB2B	http://www.ncbi.nlm.nih.gov/gene/84932	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010125	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	RAB4A	http://www.ncbi.nlm.nih.gov/gene/5867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010126	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	RAD51AP1	http://www.ncbi.nlm.nih.gov/gene/10635	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010127	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	RNF168	http://www.ncbi.nlm.nih.gov/gene/165918	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010128	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	RNF19A	http://www.ncbi.nlm.nih.gov/gene/25897	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010129	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	RPL31	http://www.ncbi.nlm.nih.gov/gene/653773	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010130	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	SEC14L1	http://www.ncbi.nlm.nih.gov/gene/6397	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010131	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	SESN2	http://www.ncbi.nlm.nih.gov/gene/83667	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010132	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	SLC25A36	http://www.ncbi.nlm.nih.gov/gene/55186	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010133	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	SLC25A4	http://www.ncbi.nlm.nih.gov/gene/291	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010134	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	SLC38A2	http://www.ncbi.nlm.nih.gov/gene/54407	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010135	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	SLC7A1	http://www.ncbi.nlm.nih.gov/gene/6541	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010136	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	SLC7A6OS	http://www.ncbi.nlm.nih.gov/gene/84138	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010137	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	SRGN	http://www.ncbi.nlm.nih.gov/gene/5552	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010138	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	STAT5B	http://www.ncbi.nlm.nih.gov/gene/6777	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010139	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	STBD1	http://www.ncbi.nlm.nih.gov/gene/8987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010140	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	STX12	http://www.ncbi.nlm.nih.gov/gene/23673	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010141	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	SYT1	http://www.ncbi.nlm.nih.gov/gene/6857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010142	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	THOC7	http://www.ncbi.nlm.nih.gov/gene/80145	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010143	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	TMEM50A	http://www.ncbi.nlm.nih.gov/gene/23585	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010144	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	TNFRSF10B	http://www.ncbi.nlm.nih.gov/gene/8795	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010145	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	TNPO1	http://www.ncbi.nlm.nih.gov/gene/3842	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010146	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	TNRC6A	http://www.ncbi.nlm.nih.gov/gene/27327	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010147	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	TNRC6B	http://www.ncbi.nlm.nih.gov/gene/23112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010148	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	TRIB1	http://www.ncbi.nlm.nih.gov/gene/10221	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010149	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	TRIM36	http://www.ncbi.nlm.nih.gov/gene/55521	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010150	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	TSNAX	http://www.ncbi.nlm.nih.gov/gene/7257	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010151	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	TSPYL5	http://www.ncbi.nlm.nih.gov/gene/85453	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010152	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	TTC35	http://www.ncbi.nlm.nih.gov/gene/9694	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010153	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	VKORC1L1	http://www.ncbi.nlm.nih.gov/gene/154807	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010154	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	VRK3	http://www.ncbi.nlm.nih.gov/gene/51231	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010155	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	WBP2	http://www.ncbi.nlm.nih.gov/gene/23558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010156	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	ZNF544	http://www.ncbi.nlm.nih.gov/gene/27300	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010157	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	ZNF550	http://www.ncbi.nlm.nih.gov/gene/162972	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010158	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	ZNF588	http://www.ncbi.nlm.nih.gov/gene/51427	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010159	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	ZNF780B	http://www.ncbi.nlm.nih.gov/gene/163131	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010160	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	BC-3	-	Host	mRNA	ZNF90	http://www.ncbi.nlm.nih.gov/gene/7643	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010161	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	LRRC8D	http://www.ncbi.nlm.nih.gov/gene/55144	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00010162	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00010163	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3(miR-K3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	NHP2L1	http://www.ncbi.nlm.nih.gov/gene/4809	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00010164	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3-3p(miR-K12-3-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002194	Lymphocytes	-	Host	Protein	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	KSHV miR-K12-1, miR-K12-3-3p,  miR-K12-6-3p, and miR-K12-11 reduce the expression  of THBS1(thrombospondin 1) by interaction with the  THBS1 4' UTR.
VHID00010165	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-3-3p(miR-K12-3-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	mRNA	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VHID00010166	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-4-3p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	-	-	Host	Protein	GEMIN8	http://www.ncbi.nlm.nih.gov/gene/54960	-	3'UTR dual-luciferase assay.	20413099	We identified a high confidence interaction site for kshv-miR-K12-4-3p in the coding sequence of GEMIN8 and for kshv-miR-K12-3 in the coding sequence of NHP2L1.
VHID00010167	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-4-3p(miR-K4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	GEMIN8	http://www.ncbi.nlm.nih.gov/gene/54960	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00010168	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	-	-	Host	Protein	RBL2	http://www.ncbi.nlm.nih.gov/gene/5934	-	ChIP and KSHV genome array, Quantitative RT-PCR, MeDIP, Luciferase assay, Infection, Reconstitution of recombinant virus, Genome copy number assay, Cells and plasmids.	20071580	Viral miRNA, K12-4-5p, was found to have a sequence targeting retinoblastoma (Rb)-like protein 2 (Rbl2), which is a known repressor of DNA methyl transferase 3a and 3b mRNA transcription. We show that ectopic expression of miR-K12-4-5p reduces Rbl2 protein expression and increases DNMT1, -3a, and -3b mRNA levels relative to the levels for control cells.
VHID00010169	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-4-5p(miR-K4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	RBL2	http://www.ncbi.nlm.nih.gov/gene/5934	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00010170	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC3	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00010171	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC3	-	Host	mRNA	NHP2L1	http://www.ncbi.nlm.nih.gov/gene/4809	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00010172	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BCBL1	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	HITS-CLIP.	17381317	Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
VHID00010173	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K12-5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	-	-	Host	Protein	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00010174	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K12-5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	-	-	Host	mRNA	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VHID00010175	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K12-5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	-	-	Host	mRNA	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00010176	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K12-5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	-	-	Host	mRNA	MYD88	http://www.ncbi.nlm.nih.gov/gene/4615	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00010177	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	-	-	Host	Protein	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00010178	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ABHD10	http://www.ncbi.nlm.nih.gov/gene/55347	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010179	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	AGGF1	http://www.ncbi.nlm.nih.gov/gene/55109	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010180	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ANKRD46	http://www.ncbi.nlm.nih.gov/gene/157567	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010181	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ANKRD52	http://www.ncbi.nlm.nih.gov/gene/283373	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010182	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ANO6	http://www.ncbi.nlm.nih.gov/gene/196527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010183	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ANXA1	http://www.ncbi.nlm.nih.gov/gene/301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010184	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	APOBEC3C	http://www.ncbi.nlm.nih.gov/gene/27350	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010185	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ARHGAP11A	http://www.ncbi.nlm.nih.gov/gene/89839	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010186	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ARIH1	http://www.ncbi.nlm.nih.gov/gene/25820	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010187	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ATF7	http://www.ncbi.nlm.nih.gov/gene/11016	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010188	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ATIC	http://www.ncbi.nlm.nih.gov/gene/471	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010189	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ATXN1L	http://www.ncbi.nlm.nih.gov/gene/342371	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010190	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	BAHD1	http://www.ncbi.nlm.nih.gov/gene/22893	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010191	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	BNC2	http://www.ncbi.nlm.nih.gov/gene/54796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010192	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	BRPF3	http://www.ncbi.nlm.nih.gov/gene/27154	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010193	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	BTBD3	http://www.ncbi.nlm.nih.gov/gene/22903	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010194	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	C14orf135	http://www.ncbi.nlm.nih.gov/gene/64430	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010195	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	C17orf45	http://www.ncbi.nlm.nih.gov/gene/125144 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010196	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	C17orf63	http://www.ncbi.nlm.nih.gov/gene/55731	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010197	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	C18orf21	http://www.ncbi.nlm.nih.gov/gene/83608	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010198	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	C18orf54	http://www.ncbi.nlm.nih.gov/gene/162681	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010199	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	C20orf177	http://www.ncbi.nlm.nih.gov/gene/63939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010200	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	C21orf66	http://www.ncbi.nlm.nih.gov/gene/94104 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010201	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	C2orf43	http://www.ncbi.nlm.nih.gov/gene/60526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010202	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	C4orf46	http://www.ncbi.nlm.nih.gov/gene/201725	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010203	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	C5orf51	http://www.ncbi.nlm.nih.gov/gene/285636	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010204	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	CAB39	http://www.ncbi.nlm.nih.gov/gene/51719	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010205	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	CBARA1	http://www.ncbi.nlm.nih.gov/gene/10367	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010206	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	CBX3	http://www.ncbi.nlm.nih.gov/gene/11335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010207	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010208	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	CD46	http://www.ncbi.nlm.nih.gov/gene/4179	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010209	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	CD59	http://www.ncbi.nlm.nih.gov/gene/966	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010210	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	CEP97	http://www.ncbi.nlm.nih.gov/gene/79598	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010211	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	CLK1	http://www.ncbi.nlm.nih.gov/gene/1195	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010212	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	CNOT6	http://www.ncbi.nlm.nih.gov/gene/57472	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010213	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	CSNK1G1	http://www.ncbi.nlm.nih.gov/gene/53944	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010214	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	CSRNP2	http://www.ncbi.nlm.nih.gov/gene/81566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010215	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	CXorf15	http://www.ncbi.nlm.nih.gov/gene/55787	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010216	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	DCP1A	http://www.ncbi.nlm.nih.gov/gene/55802	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010217	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	DDX17	http://www.ncbi.nlm.nih.gov/gene/10521	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010218	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	DFFA	http://www.ncbi.nlm.nih.gov/gene/1676	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010219	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	DLD	http://www.ncbi.nlm.nih.gov/gene/1738	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010220	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	DMXL2	http://www.ncbi.nlm.nih.gov/gene/23312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010221	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	DNAJC13	http://www.ncbi.nlm.nih.gov/gene/23317	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010222	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	DNAJC5	http://www.ncbi.nlm.nih.gov/gene/80331	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010223	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	DNM1P17	http://www.ncbi.nlm.nih.gov/gene/100131084	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010224	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	EAF2	http://www.ncbi.nlm.nih.gov/gene/55840	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010225	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	EIF2A	http://www.ncbi.nlm.nih.gov/gene/83939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010226	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ENC1	http://www.ncbi.nlm.nih.gov/gene/8507	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010227	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	FAM133A	http://www.ncbi.nlm.nih.gov/gene/286499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010228	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	FAM134A	http://www.ncbi.nlm.nih.gov/gene/79137	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010229	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	FAM171B	http://www.ncbi.nlm.nih.gov/gene/165215	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010230	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	FBN1	http://www.ncbi.nlm.nih.gov/gene/2200	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010231	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	FBXO22	http://www.ncbi.nlm.nih.gov/gene/26263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010232	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	FBXO41	http://www.ncbi.nlm.nih.gov/gene/150726	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010233	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	FBXW11	http://www.ncbi.nlm.nih.gov/gene/23291	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010234	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	FEM1A	http://www.ncbi.nlm.nih.gov/gene/55527	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010235	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	FNDC3A	http://www.ncbi.nlm.nih.gov/gene/22862	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010236	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	FOXK1	http://www.ncbi.nlm.nih.gov/gene/221937	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010237	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	GBP3	http://www.ncbi.nlm.nih.gov/gene/2635	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010238	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	GCC1	http://www.ncbi.nlm.nih.gov/gene/79571	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010239	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	GGA3	http://www.ncbi.nlm.nih.gov/gene/23163	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010240	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	GOPC	http://www.ncbi.nlm.nih.gov/gene/57120	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010241	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	GOT2	http://www.ncbi.nlm.nih.gov/gene/2806	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010242	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	GRIN2A	http://www.ncbi.nlm.nih.gov/gene/2903	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010243	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	GTF2F1	http://www.ncbi.nlm.nih.gov/gene/2962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010244	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	HJURP	http://www.ncbi.nlm.nih.gov/gene/55355	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010245	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	HNRNPC	http://www.ncbi.nlm.nih.gov/gene/3183	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010246	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	HSDL1	http://www.ncbi.nlm.nih.gov/gene/83693	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010247	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	IGDCC4	http://www.ncbi.nlm.nih.gov/gene/57722	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010248	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	IKZF3	http://www.ncbi.nlm.nih.gov/gene/22806	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010249	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	IQSEC1	http://www.ncbi.nlm.nih.gov/gene/9922	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010250	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ISG20L2	http://www.ncbi.nlm.nih.gov/gene/81875	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010251	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ITGA6	http://www.ncbi.nlm.nih.gov/gene/3655	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010252	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	JARID2	http://www.ncbi.nlm.nih.gov/gene/3720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010253	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	JMJD6	http://www.ncbi.nlm.nih.gov/gene/23210	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010254	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	JMY	http://www.ncbi.nlm.nih.gov/gene/133746	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010255	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	KDELR2	http://www.ncbi.nlm.nih.gov/gene/11014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010256	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	KIAA0240	http://www.ncbi.nlm.nih.gov/gene/23506	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010257	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	KIAA0247	http://www.ncbi.nlm.nih.gov/gene/9766	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010258	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	KIAA0323	http://www.ncbi.nlm.nih.gov/gene/23351	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010259	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	KIAA0528	http://www.ncbi.nlm.nih.gov/gene/9847	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010260	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	KIAA0895	http://www.ncbi.nlm.nih.gov/gene/23366	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010261	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	KIF11	http://www.ncbi.nlm.nih.gov/gene/3832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010262	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	KLHDC5	http://www.ncbi.nlm.nih.gov/gene/57542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010263	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	KLHL9	http://www.ncbi.nlm.nih.gov/gene/55958	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010264	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	KPNA1	http://www.ncbi.nlm.nih.gov/gene/3836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010265	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	LARP1	http://www.ncbi.nlm.nih.gov/gene/23367	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010266	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	LCP1	http://www.ncbi.nlm.nih.gov/gene/3936	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010267	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	LEF1	http://www.ncbi.nlm.nih.gov/gene/51176	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010268	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	LIPA	http://www.ncbi.nlm.nih.gov/gene/3988	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010269	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	LSM6	http://www.ncbi.nlm.nih.gov/gene/11157	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010270	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	MAML1	http://www.ncbi.nlm.nih.gov/gene/9794	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010271	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	MCFD2	http://www.ncbi.nlm.nih.gov/gene/90411	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010272	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	METT10D	http://www.ncbi.nlm.nih.gov/gene/79066	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010273	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	MFAP3	http://www.ncbi.nlm.nih.gov/gene/4238	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010274	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	MFAP3L	http://www.ncbi.nlm.nih.gov/gene/9848	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010275	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	MLL3	http://www.ncbi.nlm.nih.gov/gene/58508	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010276	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	MOBKL1B	http://www.ncbi.nlm.nih.gov/gene/55233	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010277	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	MPHOSPH8	http://www.ncbi.nlm.nih.gov/gene/54737	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010278	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	MPP5	http://www.ncbi.nlm.nih.gov/gene/64398	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010279	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	MRPL45	http://www.ncbi.nlm.nih.gov/gene/84311	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010280	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	MRPS35	http://www.ncbi.nlm.nih.gov/gene/60488	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010281	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	MTHFD2L	http://www.ncbi.nlm.nih.gov/gene/441024	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010282	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	NAT15	http://www.ncbi.nlm.nih.gov/gene/79903	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010283	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	NDRG1	http://www.ncbi.nlm.nih.gov/gene/10397	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010284	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	NEO1	http://www.ncbi.nlm.nih.gov/gene/4756	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010285	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	NF1	http://www.ncbi.nlm.nih.gov/gene/4763	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010286	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010287	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	NFYB	http://www.ncbi.nlm.nih.gov/gene/4801	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010288	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	NIPA1	http://www.ncbi.nlm.nih.gov/gene/123606	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010289	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	NOTCH2	http://www.ncbi.nlm.nih.gov/gene/4853	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010290	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	NUP62CL	http://www.ncbi.nlm.nih.gov/gene/54830	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010291	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	PDCL	http://www.ncbi.nlm.nih.gov/gene/5082	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010292	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	PHF17	http://www.ncbi.nlm.nih.gov/gene/79960	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010293	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	PIAS4	http://www.ncbi.nlm.nih.gov/gene/51588	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010294	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	PNN	http://www.ncbi.nlm.nih.gov/gene/5411	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010295	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	POLH	http://www.ncbi.nlm.nih.gov/gene/5429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010296	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	POLR3D	http://www.ncbi.nlm.nih.gov/gene/661	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010297	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	PPARA	http://www.ncbi.nlm.nih.gov/gene/5465	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010298	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	PPM1B	http://www.ncbi.nlm.nih.gov/gene/5495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010299	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	PPP1R8	http://www.ncbi.nlm.nih.gov/gene/5511	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010300	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	PPP3CA	http://www.ncbi.nlm.nih.gov/gene/5530	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010301	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	PRPS2	http://www.ncbi.nlm.nih.gov/gene/5634	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010302	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	PSKH1	http://www.ncbi.nlm.nih.gov/gene/5681	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010303	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	PSMB5	http://www.ncbi.nlm.nih.gov/gene/5693	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010304	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	RAB5B	http://www.ncbi.nlm.nih.gov/gene/5869	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010305	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	RAPH1	http://www.ncbi.nlm.nih.gov/gene/65059	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010306	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	RBAK	http://www.ncbi.nlm.nih.gov/gene/389458	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010307	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	RBM26	http://www.ncbi.nlm.nih.gov/gene/64062	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010308	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	RCOR1	http://www.ncbi.nlm.nih.gov/gene/23186	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010309	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	RCSD1	http://www.ncbi.nlm.nih.gov/gene/92241	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010310	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	RGL1	http://www.ncbi.nlm.nih.gov/gene/23179	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010311	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	RNF216	http://www.ncbi.nlm.nih.gov/gene/54476	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010312	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	RORA	http://www.ncbi.nlm.nih.gov/gene/6095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010313	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	RRAGA	http://www.ncbi.nlm.nih.gov/gene/10670	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010314	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	SAR1B	http://www.ncbi.nlm.nih.gov/gene/51128	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010315	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	SEPSECS	http://www.ncbi.nlm.nih.gov/gene/51091	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010316	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	SERTAD2	http://www.ncbi.nlm.nih.gov/gene/9792	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010317	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	SLC30A7	http://www.ncbi.nlm.nih.gov/gene/148867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010318	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	SLC44A1	http://www.ncbi.nlm.nih.gov/gene/23446	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010319	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	SLC5A3	http://www.ncbi.nlm.nih.gov/gene/6526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010320	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	SLC7A6	http://www.ncbi.nlm.nih.gov/gene/9057	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010321	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	SMURF2	http://www.ncbi.nlm.nih.gov/gene/64750	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010322	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	SMYD5	http://www.ncbi.nlm.nih.gov/gene/10322	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010323	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	SRPK1	http://www.ncbi.nlm.nih.gov/gene/6732	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010324	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	STAU2	http://www.ncbi.nlm.nih.gov/gene/27067	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010325	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	STRN3	http://www.ncbi.nlm.nih.gov/gene/29966	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010326	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	TAOK1	http://www.ncbi.nlm.nih.gov/gene/57551	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010327	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	TBC1D20	http://www.ncbi.nlm.nih.gov/gene/128637	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010328	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	TBK1	http://www.ncbi.nlm.nih.gov/gene/29110	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010329	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	TECPR2	http://www.ncbi.nlm.nih.gov/gene/9895	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010330	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	TFPI	http://www.ncbi.nlm.nih.gov/gene/7035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010331	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	TH1L	http://www.ncbi.nlm.nih.gov/gene/51497	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010332	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	TLN2	http://www.ncbi.nlm.nih.gov/gene/83660	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010333	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	TM9SF3	http://www.ncbi.nlm.nih.gov/gene/56889	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010334	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	TMCO1	http://www.ncbi.nlm.nih.gov/gene/54499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010335	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	TNRC6B	http://www.ncbi.nlm.nih.gov/gene/23112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010336	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	TRAM2	http://www.ncbi.nlm.nih.gov/gene/9697	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010337	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	TRAPPC10	http://www.ncbi.nlm.nih.gov/gene/7109	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010338	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	TRIM23	http://www.ncbi.nlm.nih.gov/gene/373	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010339	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	TRIM27	http://www.ncbi.nlm.nih.gov/gene/5987	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010340	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	TRIM65	http://www.ncbi.nlm.nih.gov/gene/201292	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010341	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	TSG101	http://www.ncbi.nlm.nih.gov/gene/7251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010342	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	USP5	http://www.ncbi.nlm.nih.gov/gene/8078	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010343	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	VANGL1	http://www.ncbi.nlm.nih.gov/gene/81839	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010344	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	VCPIP1	http://www.ncbi.nlm.nih.gov/gene/80124	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010345	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	VGLL4	http://www.ncbi.nlm.nih.gov/gene/9686	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010346	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	VPS54	http://www.ncbi.nlm.nih.gov/gene/51542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010347	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ZNF160	http://www.ncbi.nlm.nih.gov/gene/90338	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010348	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ZNF248	http://www.ncbi.nlm.nih.gov/gene/57209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010349	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ZNF264	http://www.ncbi.nlm.nih.gov/gene/9422	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010350	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ZNF333	http://www.ncbi.nlm.nih.gov/gene/84449	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010351	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ZNF490	http://www.ncbi.nlm.nih.gov/gene/57474	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010352	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ZNF518A	http://www.ncbi.nlm.nih.gov/gene/9849	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010353	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ZNF543	http://www.ncbi.nlm.nih.gov/gene/125919	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010354	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ZNF620	http://www.ncbi.nlm.nih.gov/gene/253639	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010355	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-1	-	Host	mRNA	ZNF800	http://www.ncbi.nlm.nih.gov/gene/168850	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010356	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	ABHD10	http://www.ncbi.nlm.nih.gov/gene/55347	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010357	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	AGGF1	http://www.ncbi.nlm.nih.gov/gene/55109	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010358	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	ANKRD46	http://www.ncbi.nlm.nih.gov/gene/157567	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010359	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	BAHD1	http://www.ncbi.nlm.nih.gov/gene/22893	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010360	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	BNC2	http://www.ncbi.nlm.nih.gov/gene/54796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010361	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	BTBD3	http://www.ncbi.nlm.nih.gov/gene/22903	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010362	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	C17orf45	http://www.ncbi.nlm.nih.gov/gene/125144 	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010363	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	C17orf63	http://www.ncbi.nlm.nih.gov/gene/55731	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010364	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	C18orf21	http://www.ncbi.nlm.nih.gov/gene/83608	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010365	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	C18orf54	http://www.ncbi.nlm.nih.gov/gene/162681	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010366	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	C20orf177	http://www.ncbi.nlm.nih.gov/gene/63939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010367	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	C2orf43	http://www.ncbi.nlm.nih.gov/gene/60526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010368	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	C5orf51	http://www.ncbi.nlm.nih.gov/gene/285636	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010369	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	CAB39	http://www.ncbi.nlm.nih.gov/gene/51719	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010370	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	CBARA1	http://www.ncbi.nlm.nih.gov/gene/10367	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010371	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	CBFA2T2	http://www.ncbi.nlm.nih.gov/gene/9139	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010372	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	CBX3	http://www.ncbi.nlm.nih.gov/gene/11335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010373	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	CEP97	http://www.ncbi.nlm.nih.gov/gene/79598	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010374	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	CLK1	http://www.ncbi.nlm.nih.gov/gene/1195	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010375	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	CNOT6	http://www.ncbi.nlm.nih.gov/gene/57472	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010376	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	CSRNP2	http://www.ncbi.nlm.nih.gov/gene/81566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010377	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	CXCL10	http://www.ncbi.nlm.nih.gov/gene/3627	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010378	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	DFFA	http://www.ncbi.nlm.nih.gov/gene/1676	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010379	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	DHX36	http://www.ncbi.nlm.nih.gov/gene/170506	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010380	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	DNAJC5	http://www.ncbi.nlm.nih.gov/gene/80331	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010381	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	EIF2A	http://www.ncbi.nlm.nih.gov/gene/83939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010382	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	FAM134A	http://www.ncbi.nlm.nih.gov/gene/79137	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010383	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	FBN1	http://www.ncbi.nlm.nih.gov/gene/2200	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010384	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	GCC1	http://www.ncbi.nlm.nih.gov/gene/79571	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010385	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	GGA3	http://www.ncbi.nlm.nih.gov/gene/23163	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010386	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	GTF2F1	http://www.ncbi.nlm.nih.gov/gene/2962	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010387	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	IGDCC4	http://www.ncbi.nlm.nih.gov/gene/57722	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010388	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	IKZF3	http://www.ncbi.nlm.nih.gov/gene/22806	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010389	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	ISG20L2	http://www.ncbi.nlm.nih.gov/gene/81875	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010390	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	JARID2	http://www.ncbi.nlm.nih.gov/gene/3720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010391	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	KDELR2	http://www.ncbi.nlm.nih.gov/gene/11014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010392	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	KIAA0247	http://www.ncbi.nlm.nih.gov/gene/9766	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010393	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	KIAA0528	http://www.ncbi.nlm.nih.gov/gene/9847	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010394	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	KIAA0895	http://www.ncbi.nlm.nih.gov/gene/23366	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010395	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	KLHL9	http://www.ncbi.nlm.nih.gov/gene/55958	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010396	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	KPNA1	http://www.ncbi.nlm.nih.gov/gene/3836	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010397	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	MAML1	http://www.ncbi.nlm.nih.gov/gene/9794	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010398	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	MCFD2	http://www.ncbi.nlm.nih.gov/gene/90411	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010399	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	MPHOSPH8	http://www.ncbi.nlm.nih.gov/gene/54737	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010400	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	MPP5	http://www.ncbi.nlm.nih.gov/gene/64398	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010401	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	MRPS35	http://www.ncbi.nlm.nih.gov/gene/60488	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010402	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	MYD88	http://www.ncbi.nlm.nih.gov/gene/4615	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010403	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	NDRG1	http://www.ncbi.nlm.nih.gov/gene/10397	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010404	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010405	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	NOTCH2	http://www.ncbi.nlm.nih.gov/gene/4853	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010406	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	PDCL	http://www.ncbi.nlm.nih.gov/gene/5082	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010407	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	PFKFB3	http://www.ncbi.nlm.nih.gov/gene/5209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010408	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	PHF17	http://www.ncbi.nlm.nih.gov/gene/79960	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010409	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	PIAS4	http://www.ncbi.nlm.nih.gov/gene/51588	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010410	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	POLH	http://www.ncbi.nlm.nih.gov/gene/5429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010411	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	POLR3D	http://www.ncbi.nlm.nih.gov/gene/661	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010412	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	PPM1B	http://www.ncbi.nlm.nih.gov/gene/5495	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010413	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	PPP1R8	http://www.ncbi.nlm.nih.gov/gene/5511	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010414	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	RAB5B	http://www.ncbi.nlm.nih.gov/gene/5869	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010415	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	RGL1	http://www.ncbi.nlm.nih.gov/gene/23179	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010416	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	RNF34	http://www.ncbi.nlm.nih.gov/gene/80196	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010417	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	SEPSECS	http://www.ncbi.nlm.nih.gov/gene/51091	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010418	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	SERTAD2	http://www.ncbi.nlm.nih.gov/gene/9792	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010419	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	SETD5	http://www.ncbi.nlm.nih.gov/gene/55209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010420	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	SLC30A7	http://www.ncbi.nlm.nih.gov/gene/148867	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010421	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	SLC7A6	http://www.ncbi.nlm.nih.gov/gene/9057	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010422	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	STC2	http://www.ncbi.nlm.nih.gov/gene/8614	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010423	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	STRN3	http://www.ncbi.nlm.nih.gov/gene/29966	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010424	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	TAOK1	http://www.ncbi.nlm.nih.gov/gene/57551	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010425	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	TBK1	http://www.ncbi.nlm.nih.gov/gene/29110	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010426	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	TECPR2	http://www.ncbi.nlm.nih.gov/gene/9895	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010427	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	TFPI	http://www.ncbi.nlm.nih.gov/gene/7035	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010428	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	TMCO1	http://www.ncbi.nlm.nih.gov/gene/54499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010429	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	TRAM2	http://www.ncbi.nlm.nih.gov/gene/9697	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010430	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	TRIM65	http://www.ncbi.nlm.nih.gov/gene/201292	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010431	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	TSG101	http://www.ncbi.nlm.nih.gov/gene/7251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010432	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	VGLL4	http://www.ncbi.nlm.nih.gov/gene/9686	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010433	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	VPS54	http://www.ncbi.nlm.nih.gov/gene/51542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010434	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	ZBTB2	http://www.ncbi.nlm.nih.gov/gene/57621	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010435	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	ZNF160	http://www.ncbi.nlm.nih.gov/gene/90338	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010436	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	ZNF248	http://www.ncbi.nlm.nih.gov/gene/57209	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010437	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BC-3	-	Host	mRNA	ZNF490	http://www.ncbi.nlm.nih.gov/gene/57474	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010438	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	BJAB and BCBL-3 cells	-	Host	Protein	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	Downregulation	Immunoblotting and apoptosis, Luciferase assays, Microarrays, Sequence Analysis, miRNA expression.	19098914	The functional consequence of this downregulation for KSHV latency can be assessed by examining the effects of BCLAF1 modulation on viral replication. When latently infected cells are chemically induced to lytic KSHV growth, antagonism of miRs K5,9, 10a and 10b is associated with decreased virion production (Fig. 5a) and increased BCLAF1 expression (Fig. 5c). This suggests that BCLAF1 action acts to impair lytic viral replication.
VHID00010439	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00010440	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-6(miR-K12-6)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002480	-	-	Host	Protein	MAF	http://www.ncbi.nlm.nih.gov/gene/4094	-	Iferase reporter assays, miRNA target prediction analysis, KSHV production and infection of LECs, qPCR and qRT-PCR, Western blotting, Gene expression and miRNA microarray profiling, Subcloning of KSHV miRNAs into pSIN-MCS, GSEA, Gene expression and miRNA microarray.	20080955	MAF is a target for KSHV-encoded miRNAs.Although miR-K12-6 and miR-K12-11 induced MAF repression, the strongest down-regulation was caused by the entire cluster .
VHID00010441	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-6(miR-K12-6)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002480	Lymphocytes	-	Host	Protein	MAF	http://www.ncbi.nlm.nih.gov/gene/4094	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	miR-K12-1,-6, and -11 decrease of MAF(musculoaponeurotic fibrosarcoma oncogene  homolog), K12-4-5p targeting retinoblastoma(Rb)-like protein 2(Rbl2).
VHID00010442	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-6(miR-K12-6-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002480	-	-	Host	mRNA	THBS1	http://www.ncbi.nlm.nih.gov/gene/7057	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VHID00010443	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00010444	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(MiR-K12-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	Natural Killer (NK) cell	-	Host	mRNA	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	Downregulation	Western Blot,Quantitative Real-Time PCR, Luciferase Assay.	19380116	KSHV and EBV Downregulate MICB Expression via a MiRNA-Based Translational Repression Mechanism.MiR-K12-7 and MiR-BART2-5p Directly Bind to the 3'UTR of MICB.
VHID00010445	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(kshv-miR-K12-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	-	-	Host	mRNA	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	-	Quantitative Real-Time PCR, Luciferase Assay, Western Blot.	20413099	Recently, the activating NK cell ligand MICB was found to be targeted by both ebv-miR-BART2-5p, kshv-miR-K12-7 and hcmvmiR-UL112-1.
VHID00010446	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K12-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	-	-	Host	Protein	CEBPB	http://www.ncbi.nlm.nih.gov/gene/1051	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00010447	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K12-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	-	-	Host	Protein	LIP	http://www.ncbi.nlm.nih.gov/gene/23049	Downregulation	KSHV miRNA target identification, ELISA, TLR inhibition assays, immunoblot analyses, Immunoblots, RT-PCR.	20052801	Subsequent immunoblot analyses revealed that miR-K12-3 and miR-K12-7 preferentially reduce expression of C/EBPbeta p20 (LIP), an isoform of C/EBPbeta known to function as a negative transcription regulator.
VHID00010448	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K12-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	-	-	Host	Protein	LIP	http://www.ncbi.nlm.nih.gov/gene/23049	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00010449	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K12-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	-	-	Host	Protein	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00010450	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K12-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	-	-	Host	Protein	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00010451	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K12-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	-	-	Host	mRNA	CEBPE(C/EBP)	http://www.ncbi.nlm.nih.gov/gene/1053	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VHID00010452	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K12-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	-	-	Host	mRNA	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VHID00010453	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K12-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	-	-	Host	mRNA	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00010454	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K12-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	-	-	Host	mRNA	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	Downregulation	Quantitative Real-Time PCR, Luciferase Assay, Western Blot.	19380116	Both KSHV and EBV encode a miRNA that downregulates MICB, the two viral miRNAs, miR-K12-7 and miR-BART2-5p, specifically downregulate MICB expression to avoid attack by immune cells.
VHID00010455	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	-	-	Host	Protein	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	-	And Transduction, RNA Duplex and Transfection, Production, Cytotoxicity Assay and NK Cell Preparation, Quantitative Real-Time PCR, DNA Constructs and Luciferase Assay, Lentiviral Constructs, Western Blot.	19380116	Thus, we identified the specific binding sites of miR-K12-7 and of miR-BART2-5p in the 3'UTR of MICB and can now consider the strategy of MICB miRNA targeting as a common trait of human herpesviruses.
VHID00010456	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	ADIPOR2	http://www.ncbi.nlm.nih.gov/gene/79602	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010457	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	ARHGAP12	http://www.ncbi.nlm.nih.gov/gene/94134	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010458	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	ARHGEF2	http://www.ncbi.nlm.nih.gov/gene/9181	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010459	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	ASH1L	http://www.ncbi.nlm.nih.gov/gene/55870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010460	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	ATG16L1	http://www.ncbi.nlm.nih.gov/gene/55054	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010461	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	BEND3	http://www.ncbi.nlm.nih.gov/gene/57673	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010462	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	BNC2	http://www.ncbi.nlm.nih.gov/gene/54796	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010463	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	BNIP2	http://www.ncbi.nlm.nih.gov/gene/663	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010464	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	C2orf18	http://www.ncbi.nlm.nih.gov/gene/54978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010465	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	C2orf49	http://www.ncbi.nlm.nih.gov/gene/79074	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010466	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	CANT1	http://www.ncbi.nlm.nih.gov/gene/124583	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010467	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	CAPN7	http://www.ncbi.nlm.nih.gov/gene/23473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010468	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	CASP7	http://www.ncbi.nlm.nih.gov/gene/840	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010469	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010470	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	CHRNB1	http://www.ncbi.nlm.nih.gov/gene/1140	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010471	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	CLCN5	http://www.ncbi.nlm.nih.gov/gene/1184	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010472	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	CLEC2B	http://www.ncbi.nlm.nih.gov/gene/9976	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010473	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	COMMD1	http://www.ncbi.nlm.nih.gov/gene/150684	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010474	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	COX7A2	http://www.ncbi.nlm.nih.gov/gene/1347	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010475	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	CRK	http://www.ncbi.nlm.nih.gov/gene/1398	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010476	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	CRKL	http://www.ncbi.nlm.nih.gov/gene/1399	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010477	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	CSRNP2	http://www.ncbi.nlm.nih.gov/gene/81566	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010478	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	DEAF1	http://www.ncbi.nlm.nih.gov/gene/10522	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010479	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	EPC2	http://www.ncbi.nlm.nih.gov/gene/26122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010480	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	FAM168B	http://www.ncbi.nlm.nih.gov/gene/130074	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010481	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	FAM76B	http://www.ncbi.nlm.nih.gov/gene/143684	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010482	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	FGD4	http://www.ncbi.nlm.nih.gov/gene/121512	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010483	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	FOXK1	http://www.ncbi.nlm.nih.gov/gene/221937	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010484	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	FRS2	http://www.ncbi.nlm.nih.gov/gene/10818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010485	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	GAN	http://www.ncbi.nlm.nih.gov/gene/8139	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010486	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	GRHL1	http://www.ncbi.nlm.nih.gov/gene/29841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010487	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	IL2RB	http://www.ncbi.nlm.nih.gov/gene/3560	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010488	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	IMPDH1	http://www.ncbi.nlm.nih.gov/gene/3614	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010489	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	JHDM1D	http://www.ncbi.nlm.nih.gov/gene/80853	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010490	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	KBTBD4	http://www.ncbi.nlm.nih.gov/gene/55709	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010491	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	KDM5B	http://www.ncbi.nlm.nih.gov/gene/10765	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010492	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	KHSRP	http://www.ncbi.nlm.nih.gov/gene/8570	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010493	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	KIF14	http://www.ncbi.nlm.nih.gov/gene/9928	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010494	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	LCORL	http://www.ncbi.nlm.nih.gov/gene/254251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010495	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	LIMA1	http://www.ncbi.nlm.nih.gov/gene/51474	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010496	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	LONP2	http://www.ncbi.nlm.nih.gov/gene/83752	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010497	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	MAML2	http://www.ncbi.nlm.nih.gov/gene/84441	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010498	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	MAP3K3	http://www.ncbi.nlm.nih.gov/gene/4215	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010499	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	MBNL2	http://www.ncbi.nlm.nih.gov/gene/10150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010500	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	MDFIC	http://www.ncbi.nlm.nih.gov/gene/29969	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010501	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	MFAP3	http://www.ncbi.nlm.nih.gov/gene/4238	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010502	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	MKNK2	http://www.ncbi.nlm.nih.gov/gene/2872	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010503	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	MRPL49	http://www.ncbi.nlm.nih.gov/gene/740	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010504	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	MRPS16	http://www.ncbi.nlm.nih.gov/gene/51021	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010505	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	MTHFR	http://www.ncbi.nlm.nih.gov/gene/4524	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010506	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	NDUFA8	http://www.ncbi.nlm.nih.gov/gene/4702	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010507	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	NFE2L3	http://www.ncbi.nlm.nih.gov/gene/9603	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010508	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	NUDCD3	http://www.ncbi.nlm.nih.gov/gene/23386	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010509	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	NUP43	http://www.ncbi.nlm.nih.gov/gene/348995	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010510	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	OGT	http://www.ncbi.nlm.nih.gov/gene/8473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010511	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	OSBPL2	http://www.ncbi.nlm.nih.gov/gene/9885	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010512	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	PARP16	http://www.ncbi.nlm.nih.gov/gene/54956	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010513	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	PCBP1	http://www.ncbi.nlm.nih.gov/gene/5093	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010514	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	PDCL	http://www.ncbi.nlm.nih.gov/gene/5082	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010515	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	PHC3	http://www.ncbi.nlm.nih.gov/gene/80012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010516	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	POLI	http://www.ncbi.nlm.nih.gov/gene/11201	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010517	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	POLR1B	http://www.ncbi.nlm.nih.gov/gene/84172	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010518	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	POP4	http://www.ncbi.nlm.nih.gov/gene/10775	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010519	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	PRDM1	http://www.ncbi.nlm.nih.gov/gene/639	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010520	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	RABGEF1	http://www.ncbi.nlm.nih.gov/gene/27342	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010521	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	RBM43	http://www.ncbi.nlm.nih.gov/gene/375287	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010522	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	RC3H2	http://www.ncbi.nlm.nih.gov/gene/54542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010523	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	ROD1	http://www.ncbi.nlm.nih.gov/gene/9991	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010524	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	RPP30	http://www.ncbi.nlm.nih.gov/gene/10556	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010525	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	SCAMP1	http://www.ncbi.nlm.nih.gov/gene/9522	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010526	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	SCAMP2	http://www.ncbi.nlm.nih.gov/gene/10066	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010527	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	SF3A1	http://www.ncbi.nlm.nih.gov/gene/10291	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010528	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	SIN3B	http://www.ncbi.nlm.nih.gov/gene/23309	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010529	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	SLC26A11	http://www.ncbi.nlm.nih.gov/gene/284129	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010530	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	SLC38A1	http://www.ncbi.nlm.nih.gov/gene/81539	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010531	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	SLC4A7	http://www.ncbi.nlm.nih.gov/gene/9497	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010532	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	SLC5A3	http://www.ncbi.nlm.nih.gov/gene/6526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010533	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	SRXN1	http://www.ncbi.nlm.nih.gov/gene/140809	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010534	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	STAM2	http://www.ncbi.nlm.nih.gov/gene/10254	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010535	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	STARD9	http://www.ncbi.nlm.nih.gov/gene/57519	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010536	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	STRN	http://www.ncbi.nlm.nih.gov/gene/6801	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010537	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	SUMO3	http://www.ncbi.nlm.nih.gov/gene/285829	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010538	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	SYNJ2BP	http://www.ncbi.nlm.nih.gov/gene/55333	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010539	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	TAF2	http://www.ncbi.nlm.nih.gov/gene/6873	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010540	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	TCEB3	http://www.ncbi.nlm.nih.gov/gene/6924	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010541	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	TGIF2	http://www.ncbi.nlm.nih.gov/gene/60436	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010542	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	TNRC6B	http://www.ncbi.nlm.nih.gov/gene/23112	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010543	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	TOP1	http://www.ncbi.nlm.nih.gov/gene/7150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010544	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	TRAK1	http://www.ncbi.nlm.nih.gov/gene/22906	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010545	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	TRAM2	http://www.ncbi.nlm.nih.gov/gene/9697	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010546	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	TUG1	http://www.ncbi.nlm.nih.gov/gene/55000	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010547	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	UBXN7	http://www.ncbi.nlm.nih.gov/gene/26043	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010548	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	UTP23	http://www.ncbi.nlm.nih.gov/gene/84294	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010549	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	VPS13C	http://www.ncbi.nlm.nih.gov/gene/54832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010550	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	XPO4	http://www.ncbi.nlm.nih.gov/gene/64328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010551	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	ZBTB37	http://www.ncbi.nlm.nih.gov/gene/84614	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010552	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	ZBTB43	http://www.ncbi.nlm.nih.gov/gene/23099	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010553	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	ZMPSTE24	http://www.ncbi.nlm.nih.gov/gene/10269	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010554	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	ZNF436	http://www.ncbi.nlm.nih.gov/gene/80818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010555	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-1	-	Host	mRNA	ZNF655	http://www.ncbi.nlm.nih.gov/gene/79027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010556	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	ABCB8	http://www.ncbi.nlm.nih.gov/gene/11194	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010557	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	ABI2	http://www.ncbi.nlm.nih.gov/gene/10152	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010558	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	ADIPOR2	http://www.ncbi.nlm.nih.gov/gene/79602	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010559	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	ALAD	http://www.ncbi.nlm.nih.gov/gene/210	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010560	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	ARHGEF2	http://www.ncbi.nlm.nih.gov/gene/9181	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010561	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	ASH1L	http://www.ncbi.nlm.nih.gov/gene/55870	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010562	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	BEND3	http://www.ncbi.nlm.nih.gov/gene/57673	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010563	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	BNIP2	http://www.ncbi.nlm.nih.gov/gene/663	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010564	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	BNIP3	http://www.ncbi.nlm.nih.gov/gene/664	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010565	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	C10orf119	http://www.ncbi.nlm.nih.gov/gene/79892	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010566	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	C14orf135	http://www.ncbi.nlm.nih.gov/gene/64430	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010567	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	C2orf18	http://www.ncbi.nlm.nih.gov/gene/54978	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010568	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	CANT1	http://www.ncbi.nlm.nih.gov/gene/124583	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010569	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	CCNT2	http://www.ncbi.nlm.nih.gov/gene/905	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010570	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	CD2BP2	http://www.ncbi.nlm.nih.gov/gene/10421	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010571	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	CHRNB1	http://www.ncbi.nlm.nih.gov/gene/1140	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010572	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	COMMD1	http://www.ncbi.nlm.nih.gov/gene/150684	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010573	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	COX7A2	http://www.ncbi.nlm.nih.gov/gene/1347	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010574	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	CRKL	http://www.ncbi.nlm.nih.gov/gene/1399	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010575	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	CSMD1	http://www.ncbi.nlm.nih.gov/gene/64478	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010576	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	CTH	http://www.ncbi.nlm.nih.gov/gene/1491	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010577	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	DDB2	http://www.ncbi.nlm.nih.gov/gene/1643	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010578	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	DEAF1	http://www.ncbi.nlm.nih.gov/gene/10522	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010579	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	DOK1	http://www.ncbi.nlm.nih.gov/gene/220077	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010580	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	EPC2	http://www.ncbi.nlm.nih.gov/gene/26122	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010581	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	FAM46C	http://www.ncbi.nlm.nih.gov/gene/54855	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010582	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	FAM76B	http://www.ncbi.nlm.nih.gov/gene/143684	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010583	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	GALNT11	http://www.ncbi.nlm.nih.gov/gene/63917	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010584	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	GGA2	http://www.ncbi.nlm.nih.gov/gene/23062	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010585	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	GMFB	http://www.ncbi.nlm.nih.gov/gene/2764	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010586	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	GRHL1	http://www.ncbi.nlm.nih.gov/gene/29841	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010587	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	HNRNPU	http://www.ncbi.nlm.nih.gov/gene/3192	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010588	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	HOMEZ	http://www.ncbi.nlm.nih.gov/gene/57594	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010589	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	IFRD1	http://www.ncbi.nlm.nih.gov/gene/3475	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010590	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	IL2RB	http://www.ncbi.nlm.nih.gov/gene/3560	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010591	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	IMPDH1	http://www.ncbi.nlm.nih.gov/gene/3614	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010592	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	ITPRIP	http://www.ncbi.nlm.nih.gov/gene/85450	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010593	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	JHDM1D	http://www.ncbi.nlm.nih.gov/gene/80853	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010594	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	KBTBD4	http://www.ncbi.nlm.nih.gov/gene/55709	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010595	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	KDM5B	http://www.ncbi.nlm.nih.gov/gene/10765	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010596	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	KHSRP	http://www.ncbi.nlm.nih.gov/gene/8570	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010597	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	LIMA1	http://www.ncbi.nlm.nih.gov/gene/51474	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010598	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	MAML2	http://www.ncbi.nlm.nih.gov/gene/84441	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010599	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	MAP3K3	http://www.ncbi.nlm.nih.gov/gene/4215	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010600	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	MAP4	http://www.ncbi.nlm.nih.gov/gene/4134	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010601	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	MBNL2	http://www.ncbi.nlm.nih.gov/gene/10150	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010602	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	MEGF9	http://www.ncbi.nlm.nih.gov/gene/1955	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010603	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	MFAP3	http://www.ncbi.nlm.nih.gov/gene/4238	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010604	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	MFSD1	http://www.ncbi.nlm.nih.gov/gene/64747	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010605	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	MKNK2	http://www.ncbi.nlm.nih.gov/gene/2872	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010606	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	MRPL49	http://www.ncbi.nlm.nih.gov/gene/740	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010607	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	MRPS16	http://www.ncbi.nlm.nih.gov/gene/51021	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010608	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	MTHFR	http://www.ncbi.nlm.nih.gov/gene/4524	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010609	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	NDUFA8	http://www.ncbi.nlm.nih.gov/gene/4702	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010610	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	NET1	http://www.ncbi.nlm.nih.gov/gene/10276	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010611	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	NFE2L3	http://www.ncbi.nlm.nih.gov/gene/9603	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010612	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	NUDCD3	http://www.ncbi.nlm.nih.gov/gene/23386	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010613	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	NUP43	http://www.ncbi.nlm.nih.gov/gene/348995	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010614	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	NUP98	http://www.ncbi.nlm.nih.gov/gene/4928	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010615	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	OGT	http://www.ncbi.nlm.nih.gov/gene/8473	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010616	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	PARP16	http://www.ncbi.nlm.nih.gov/gene/54956	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010617	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	PCBP1	http://www.ncbi.nlm.nih.gov/gene/5093	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010618	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	PCNX	http://www.ncbi.nlm.nih.gov/gene/22990	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010619	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	PDCL	http://www.ncbi.nlm.nih.gov/gene/5082	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010620	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	PHC3	http://www.ncbi.nlm.nih.gov/gene/80012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010621	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	POLI	http://www.ncbi.nlm.nih.gov/gene/11201	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010622	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	POLR1B	http://www.ncbi.nlm.nih.gov/gene/84172	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010623	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	POLR2E	http://www.ncbi.nlm.nih.gov/gene/5434	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010624	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	PON2	http://www.ncbi.nlm.nih.gov/gene/5445	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010625	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	POP4	http://www.ncbi.nlm.nih.gov/gene/10775	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010626	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	PRDM1	http://www.ncbi.nlm.nih.gov/gene/639	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010627	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	RASGRP3	http://www.ncbi.nlm.nih.gov/gene/25780	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010628	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	RBL2	http://www.ncbi.nlm.nih.gov/gene/5934	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010629	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	RBM43	http://www.ncbi.nlm.nih.gov/gene/375287	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010630	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	RC3H2	http://www.ncbi.nlm.nih.gov/gene/54542	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010631	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	ROD1	http://www.ncbi.nlm.nih.gov/gene/9991	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010632	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	RPP30	http://www.ncbi.nlm.nih.gov/gene/10556	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010633	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	RPS6KA1	http://www.ncbi.nlm.nih.gov/gene/6195	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010634	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	SCAMP1	http://www.ncbi.nlm.nih.gov/gene/9522	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010635	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	SCAMP2	http://www.ncbi.nlm.nih.gov/gene/10066	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010636	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	SERPINB9	http://www.ncbi.nlm.nih.gov/gene/5272	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010637	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	SF3A1	http://www.ncbi.nlm.nih.gov/gene/10291	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010638	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	SLC26A11	http://www.ncbi.nlm.nih.gov/gene/284129	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010639	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	SLC35F5	http://www.ncbi.nlm.nih.gov/gene/80255	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010640	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	SLC38A1	http://www.ncbi.nlm.nih.gov/gene/81539	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010641	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	SLC5A3	http://www.ncbi.nlm.nih.gov/gene/6526	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010642	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	SSH1	http://www.ncbi.nlm.nih.gov/gene/54434	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010643	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	STAM2	http://www.ncbi.nlm.nih.gov/gene/10254	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010644	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	STRN	http://www.ncbi.nlm.nih.gov/gene/6801	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010645	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	SUMO3	http://www.ncbi.nlm.nih.gov/gene/285829	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010646	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	TAF2	http://www.ncbi.nlm.nih.gov/gene/6873	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010647	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	TBC1D23	http://www.ncbi.nlm.nih.gov/gene/55773	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010648	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	TCEB3	http://www.ncbi.nlm.nih.gov/gene/6924	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010649	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	TGIF2	http://www.ncbi.nlm.nih.gov/gene/60436	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010650	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	TMEM154	http://www.ncbi.nlm.nih.gov/gene/201799	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010651	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	TMEM173	http://www.ncbi.nlm.nih.gov/gene/340061	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010652	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	TOR1AIP1	http://www.ncbi.nlm.nih.gov/gene/26092	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010653	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	TRAK1	http://www.ncbi.nlm.nih.gov/gene/22906	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010654	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	TRAM2	http://www.ncbi.nlm.nih.gov/gene/9697	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010655	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	TUG1	http://www.ncbi.nlm.nih.gov/gene/55000	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010656	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	UBXN7	http://www.ncbi.nlm.nih.gov/gene/26043	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010657	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	VPS13C	http://www.ncbi.nlm.nih.gov/gene/54832	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010658	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	WDFY3	http://www.ncbi.nlm.nih.gov/gene/23001	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010659	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	XPO4	http://www.ncbi.nlm.nih.gov/gene/64328	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010660	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	ZBTB37	http://www.ncbi.nlm.nih.gov/gene/84614	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010661	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	ZBTB43	http://www.ncbi.nlm.nih.gov/gene/23099	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010662	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	ZNF655	http://www.ncbi.nlm.nih.gov/gene/79027	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010663	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	BC-3	-	Host	mRNA	ZNF689	http://www.ncbi.nlm.nih.gov/gene/115509	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010664	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-7(miR-K7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	MICB	http://www.ncbi.nlm.nih.gov/gene/4277	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00010665	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-1	-	Host	mRNA	AP1G1	http://www.ncbi.nlm.nih.gov/gene/164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010666	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-1	-	Host	mRNA	C14orf119	http://www.ncbi.nlm.nih.gov/gene/55017	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010667	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-1	-	Host	mRNA	CARKD	http://www.ncbi.nlm.nih.gov/gene/55739	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010668	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-1	-	Host	mRNA	CBX8	http://www.ncbi.nlm.nih.gov/gene/57332	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010669	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-1	-	Host	mRNA	CMTM7	http://www.ncbi.nlm.nih.gov/gene/112616	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010670	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-1	-	Host	mRNA	CUX1	http://www.ncbi.nlm.nih.gov/gene/1523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010671	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-1	-	Host	mRNA	GLCCI1	http://www.ncbi.nlm.nih.gov/gene/113263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010672	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-1	-	Host	mRNA	MIF	http://www.ncbi.nlm.nih.gov/gene/4282	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010673	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-1	-	Host	mRNA	NDRG1	http://www.ncbi.nlm.nih.gov/gene/10397	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010674	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-1	-	Host	mRNA	PANK3	http://www.ncbi.nlm.nih.gov/gene/79646	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010675	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-1	-	Host	mRNA	PPARGC1A	http://www.ncbi.nlm.nih.gov/gene/10891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010676	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-1	-	Host	mRNA	SFMBT2	http://www.ncbi.nlm.nih.gov/gene/57713	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010677	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-1	-	Host	mRNA	SMNDC1	http://www.ncbi.nlm.nih.gov/gene/10285	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010678	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-1	-	Host	mRNA	ZNF586	http://www.ncbi.nlm.nih.gov/gene/54807	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010679	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	AP1G1	http://www.ncbi.nlm.nih.gov/gene/164	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010680	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	C14orf119	http://www.ncbi.nlm.nih.gov/gene/55017	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010681	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	CARKD	http://www.ncbi.nlm.nih.gov/gene/55739	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010682	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	CBX8	http://www.ncbi.nlm.nih.gov/gene/57332	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010683	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	CMTM7	http://www.ncbi.nlm.nih.gov/gene/112616	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010684	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	CUX1	http://www.ncbi.nlm.nih.gov/gene/1523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010685	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	GLCCI1	http://www.ncbi.nlm.nih.gov/gene/113263	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010686	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	HCFC1	http://www.ncbi.nlm.nih.gov/gene/3054	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010687	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	MARK2	http://www.ncbi.nlm.nih.gov/gene/2011	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010688	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	MIF	http://www.ncbi.nlm.nih.gov/gene/4282	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010689	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	NDRG1	http://www.ncbi.nlm.nih.gov/gene/10397	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010690	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	PANK3	http://www.ncbi.nlm.nih.gov/gene/79646	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010691	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	PPARGC1A	http://www.ncbi.nlm.nih.gov/gene/10891	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010692	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	SFMBT2	http://www.ncbi.nlm.nih.gov/gene/57713	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010693	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	SMNDC1	http://www.ncbi.nlm.nih.gov/gene/10285	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010694	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	YWHAG	http://www.ncbi.nlm.nih.gov/gene/7532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010695	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	ZNF391	http://www.ncbi.nlm.nih.gov/gene/346157	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010696	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-8(miR-K8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002478	BC-3	-	Host	mRNA	ZNF586	http://www.ncbi.nlm.nih.gov/gene/54807	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6B BC-3 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010697	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K12-9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	-	-	Host	Protein	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VHID00010698	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K12-9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	-	-	Host	Protein	ZFYVE9	http://www.ncbi.nlm.nih.gov/gene/9372	-	PAR-CLIP, HITS-CLIP, RIP-Chip.	23170179	Here,we explore the similarities and differences in the functions of miRNA targets from the limited number of experimentally validated miRNA targets and the larger number of targets predicted by recent reports using high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation(HITS-CLIP and PAR-CLIP)(Table 2). Table 2 Validated targets from high-throughput studies. Shown are cellular targets identified by photoactivatable ribonucleoside enhanced crosslinking and immunoprecipitation(PAR-CLIP), High-throughput sequencing of RNA isolated by crosslinking immunoprecipitation and microarray(RIP-Chip)techniques. Validation of these targets was done using luciferase reporter assays.
VHID00010699	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K12-9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	-	-	Host	mRNA	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VHID00010700	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K12-9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	-	-	Host	mRNA	IRAK1	http://www.ncbi.nlm.nih.gov/gene/3654	-	Luciferase reporter assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1). Table 1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.
VHID00010701	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	-	-	Host	Protein	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00010702	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	ACSL3	http://www.ncbi.nlm.nih.gov/gene/2181	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010703	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	ADAR	http://www.ncbi.nlm.nih.gov/gene/103	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010704	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	AGFG1	http://www.ncbi.nlm.nih.gov/gene/3267	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010705	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	AMMECR1	http://www.ncbi.nlm.nih.gov/gene/9949	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010706	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	ANKRD52	http://www.ncbi.nlm.nih.gov/gene/283373	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010707	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	APAF1	http://www.ncbi.nlm.nih.gov/gene/317	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010708	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	ARFGEF1	http://www.ncbi.nlm.nih.gov/gene/10565	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010709	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	ARL5A	http://www.ncbi.nlm.nih.gov/gene/26225	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010710	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	ASB7	http://www.ncbi.nlm.nih.gov/gene/140460	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010711	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	ATF3	http://www.ncbi.nlm.nih.gov/gene/467	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010712	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	ATP6V1A	http://www.ncbi.nlm.nih.gov/gene/523	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010713	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	BRAP	http://www.ncbi.nlm.nih.gov/gene/8315	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010714	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	BRMS1L	http://www.ncbi.nlm.nih.gov/gene/84312	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010715	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	BTBD3	http://www.ncbi.nlm.nih.gov/gene/22903	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010716	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	C10orf46	http://www.ncbi.nlm.nih.gov/gene/143384	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010717	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	C14orf138	http://www.ncbi.nlm.nih.gov/gene/79609	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010718	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	C19orf39	http://www.ncbi.nlm.nih.gov/gene/126074	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010719	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	C4orf32	http://www.ncbi.nlm.nih.gov/gene/132720	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010720	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	C8orf44	http://www.ncbi.nlm.nih.gov/gene/56260	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010721	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	C8orf82	http://www.ncbi.nlm.nih.gov/gene/414919	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010722	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	CBX1	http://www.ncbi.nlm.nih.gov/gene/10951	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010723	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	CBX5	http://www.ncbi.nlm.nih.gov/gene/23468	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010724	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	CD226	http://www.ncbi.nlm.nih.gov/gene/10666	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010725	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	CDCA5	http://www.ncbi.nlm.nih.gov/gene/113130	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010726	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	CEP97	http://www.ncbi.nlm.nih.gov/gene/79598	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010727	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	CHTF8	http://www.ncbi.nlm.nih.gov/gene/54921	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010728	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	CTDSPL2	http://www.ncbi.nlm.nih.gov/gene/51496	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010729	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	DRAM1	http://www.ncbi.nlm.nih.gov/gene/55332	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010730	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	EAPP	http://www.ncbi.nlm.nih.gov/gene/55837	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010731	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	EIF2A	http://www.ncbi.nlm.nih.gov/gene/83939	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010732	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	ELP2	http://www.ncbi.nlm.nih.gov/gene/55250	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010733	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	FAM13B	http://www.ncbi.nlm.nih.gov/gene/51306	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010734	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	FAM3C	http://www.ncbi.nlm.nih.gov/gene/10447	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010735	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	FBXO8	http://www.ncbi.nlm.nih.gov/gene/26269	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010736	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	FNDC3B	http://www.ncbi.nlm.nih.gov/gene/64778	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010737	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	FRS2	http://www.ncbi.nlm.nih.gov/gene/10818	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010738	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	GABPB1	http://www.ncbi.nlm.nih.gov/gene/2553	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010739	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	GBAS	http://www.ncbi.nlm.nih.gov/gene/2631	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010740	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	GCLC	http://www.ncbi.nlm.nih.gov/gene/2729	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010741	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	GEN1	http://www.ncbi.nlm.nih.gov/gene/348654	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010742	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	GTF3C4	http://www.ncbi.nlm.nih.gov/gene/9329	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010743	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	HGF	http://www.ncbi.nlm.nih.gov/gene/3082	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010744	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	HIC2	http://www.ncbi.nlm.nih.gov/gene/23119	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010745	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	HIST1H2BF	http://www.ncbi.nlm.nih.gov/gene/8343	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010746	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	HIST1H3H	http://www.ncbi.nlm.nih.gov/gene/8356	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010747	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	IQGAP3	http://www.ncbi.nlm.nih.gov/gene/128239	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010748	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	KBTBD8	http://www.ncbi.nlm.nih.gov/gene/84541	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010749	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	KCTD20	http://www.ncbi.nlm.nih.gov/gene/222658	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010750	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	KDM2A	http://www.ncbi.nlm.nih.gov/gene/22992	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010751	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	KIAA1147	http://www.ncbi.nlm.nih.gov/gene/57189	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010752	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	KIF18A	http://www.ncbi.nlm.nih.gov/gene/81930	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010753	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	KLHL15	http://www.ncbi.nlm.nih.gov/gene/80311	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010754	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	KPNA4	http://www.ncbi.nlm.nih.gov/gene/3840	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010755	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	LARP1	http://www.ncbi.nlm.nih.gov/gene/23367	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010756	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	MAK16	http://www.ncbi.nlm.nih.gov/gene/84549	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010757	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	MAPK1IP1L	http://www.ncbi.nlm.nih.gov/gene/93487	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010758	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	MDFIC	http://www.ncbi.nlm.nih.gov/gene/29969	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010759	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	MDM2	http://www.ncbi.nlm.nih.gov/gene/4193	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010760	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	MED4	http://www.ncbi.nlm.nih.gov/gene/29079	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010761	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	MLL	http://www.ncbi.nlm.nih.gov/gene/4297	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010762	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	MLLT10	http://www.ncbi.nlm.nih.gov/gene/8028	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010763	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	MRPL35	http://www.ncbi.nlm.nih.gov/gene/51318	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010764	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	MTPN	http://www.ncbi.nlm.nih.gov/gene/767558	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010765	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	NCOA2	http://www.ncbi.nlm.nih.gov/gene/10499	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010766	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	NIPA1	http://www.ncbi.nlm.nih.gov/gene/123606	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010767	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	NUFIP2	http://www.ncbi.nlm.nih.gov/gene/57532	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010768	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	OAZ2	http://www.ncbi.nlm.nih.gov/gene/4947	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010769	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	OTUD6B	http://www.ncbi.nlm.nih.gov/gene/51633	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010770	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	OXNAD1	http://www.ncbi.nlm.nih.gov/gene/92106	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010771	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	PALM2-AKAP2	http://www.ncbi.nlm.nih.gov/gene/114299	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010772	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	PATZ1	http://www.ncbi.nlm.nih.gov/gene/23598	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010773	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	PDZD11	http://www.ncbi.nlm.nih.gov/gene/51248	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010774	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	PGRMC1	http://www.ncbi.nlm.nih.gov/gene/10857	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010775	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	PHC3	http://www.ncbi.nlm.nih.gov/gene/80012	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010776	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	PHF17	http://www.ncbi.nlm.nih.gov/gene/79960	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010777	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	PI15	http://www.ncbi.nlm.nih.gov/gene/51050	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010778	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	PICALM	http://www.ncbi.nlm.nih.gov/gene/8301	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010779	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	PLDN	http://www.ncbi.nlm.nih.gov/gene/26258	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010780	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	PPM1K	http://www.ncbi.nlm.nih.gov/gene/152926	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010781	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	PSMF1	http://www.ncbi.nlm.nih.gov/gene/9491	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010782	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	PSMG2	http://www.ncbi.nlm.nih.gov/gene/56984	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010783	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	RAD21	http://www.ncbi.nlm.nih.gov/gene/5885	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010784	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	RBM12B	http://www.ncbi.nlm.nih.gov/gene/389677	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010785	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	RFX7	http://www.ncbi.nlm.nih.gov/gene/64864	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010786	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	RNASEL	http://www.ncbi.nlm.nih.gov/gene/6041	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010787	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	SEC62	http://www.ncbi.nlm.nih.gov/gene/7095	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010788	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	SEMA4D	http://www.ncbi.nlm.nih.gov/gene/10507	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010789	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	SHISA5	http://www.ncbi.nlm.nih.gov/gene/51246	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010790	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	SLC35A4	http://www.ncbi.nlm.nih.gov/gene/113829	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010791	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	SLC38A1	http://www.ncbi.nlm.nih.gov/gene/81539	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010792	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	SLC38A2	http://www.ncbi.nlm.nih.gov/gene/54407	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010793	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	SMARCAD1	http://www.ncbi.nlm.nih.gov/gene/56916	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010794	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	SMC1A	http://www.ncbi.nlm.nih.gov/gene/8243	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010795	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	SMG7	http://www.ncbi.nlm.nih.gov/gene/9887	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010796	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	SOCS1	http://www.ncbi.nlm.nih.gov/gene/8651	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010797	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	SPTLC2	http://www.ncbi.nlm.nih.gov/gene/9517	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010798	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	SSU72	http://www.ncbi.nlm.nih.gov/gene/29101	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010799	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	ST7	http://www.ncbi.nlm.nih.gov/gene/7982	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010800	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	STARD4	http://www.ncbi.nlm.nih.gov/gene/134429	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010801	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	STK16	http://www.ncbi.nlm.nih.gov/gene/8576	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010802	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	STK38	http://www.ncbi.nlm.nih.gov/gene/11329	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010803	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	SYNCRIP	http://www.ncbi.nlm.nih.gov/gene/10492	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010804	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	TAF1B	http://www.ncbi.nlm.nih.gov/gene/9014	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010805	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	TFDP2	http://www.ncbi.nlm.nih.gov/gene/7029	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010806	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	TIMM17A	http://www.ncbi.nlm.nih.gov/gene/10440	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010807	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	TKT	http://www.ncbi.nlm.nih.gov/gene/7086	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010808	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	TMED4	http://www.ncbi.nlm.nih.gov/gene/222068	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010809	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	TMEM138	http://www.ncbi.nlm.nih.gov/gene/51524	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010810	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	TMEM170A	http://www.ncbi.nlm.nih.gov/gene/124491	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010811	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	TMPPE	http://www.ncbi.nlm.nih.gov/gene/643853	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010812	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	TSG101	http://www.ncbi.nlm.nih.gov/gene/7251	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010813	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	TULP4	http://www.ncbi.nlm.nih.gov/gene/56995	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010814	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	TWISTNB	http://www.ncbi.nlm.nih.gov/gene/221830	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010815	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	UBA6	http://www.ncbi.nlm.nih.gov/gene/55236	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010816	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	UBE2K	http://www.ncbi.nlm.nih.gov/gene/3093	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010817	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	WDR7	http://www.ncbi.nlm.nih.gov/gene/23335	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010818	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	XPR1	http://www.ncbi.nlm.nih.gov/gene/9213	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010819	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	XRN1	http://www.ncbi.nlm.nih.gov/gene/54464	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010820	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	ZBTB7B	http://www.ncbi.nlm.nih.gov/gene/51043	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010821	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	ZFYVE9	http://www.ncbi.nlm.nih.gov/gene/9372	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010822	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	ZNF498	http://www.ncbi.nlm.nih.gov/gene/221785	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010823	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BC-1	-	Host	mRNA	ZNF543	http://www.ncbi.nlm.nih.gov/gene/125919	-	PAR-CLIP.	22100165	Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.
VHID00010824	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	BJAB and BCBL-4 cells	-	Host	Protein	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	Downregulation	Immunoblotting and apoptosis, Luciferase assays, Microarrays, Sequence Analysis, miRNA expression.	19098914	The functional consequence of this downregulation for KSHV latency can be assessed by examining the effects of BCLAF1 modulation on viral replication. When latently infected cells are chemically induced to lytic KSHV growth, antagonism of miRs K5,9, 10a and 10b is associated with decreased virion production (Fig. 5a) and increased BCLAF1 expression (Fig. 5c). This suggests that BCLAF1 action acts to impair lytic viral replication.
VHID00010825	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	BCLAF1	http://www.ncbi.nlm.nih.gov/gene/9774	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00010826	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	-	-	Host	Protein	CEBPB	http://www.ncbi.nlm.nih.gov/gene/1051	-	Transfection assays, KSHV miRNA target identification, ELISA, TLR inhibition assays, Immunoblots, IFA, Statistical analysis, KSHV purification and infection, RT-PCR, Flow cytometry.	20052801	Bioinformatics analysis identified KSHV miRNA binding sites for miR-K12-3 and miR-K12-7 within the 3'UTR of the basic region/leucine zipper motif transcription factor C/EBP, a known regulator of IL-6 and IL-10 transcriptional activation.
VHID00010827	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K3(miR-K12-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002483	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	CEBPB	http://www.ncbi.nlm.nih.gov/gene/1051	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00010828	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K7(miR-K12-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	-	-	Host	Protein	CEBPB	http://www.ncbi.nlm.nih.gov/gene/1051	-	Transfection assays, KSHV miRNA target identification, ELISA, TLR inhibition assays, Immunoblots, IFA, Statistical analysis, KSHV purification and infection, RT-PCR, Flow cytometry.	20052801	Bioinformatics analysis identified KSHV miRNA binding sites for miR-K12-3 and miR-K12-7 within the 3'UTR of the basic region/leucine zipper motif transcription factor C/EBP, a known regulator of IL-6 and IL-10 transcriptional activation.
VHID00010829	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K7(miR-K12-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002479	Primary effusion lymphoma (PEL) cell lines	-	Host	Protein	CEBPB	http://www.ncbi.nlm.nih.gov/gene/1051	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VHID00010830	Kaposi's sarcoma-associated herpesvirus(KSHV)	Mus musculus	Virus	miRNA	kshv-miR-K12-4-3p(miR-K12-4-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002192	-	-	Host	Protein	Gemin8	http://www.ncbi.nlm.nih.gov/gene/237221	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00010831	Kaposi's sarcoma-associated herpesvirus(KSHV)	Mus musculus	Virus	miRNA	kshv-miR-K12-4-5p(K12-4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	Lymphocytes	-	Host	Protein	Rb12	http://www.ncbi.nlm.nih.gov/gene/19651	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	miR-K12-1,-6, and -11 decrease of MAF(musculoaponeurotic fibrosarcoma oncogene  homolog), K12-4-5p targeting retinoblastoma(Rb)-like protein 2(Rbl2).
VHID00010832	Kaposi's sarcoma-associated herpesvirus(KSHV)	Mus musculus	Virus	miRNA	kshv-miR-K12-4-5p(miR-K12-4-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002191	-	-	Host	Protein	Rbl2	http://www.ncbi.nlm.nih.gov/gene/19651	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00010833	Kaposi's sarcoma-associated herpesvirus(KSHV)	Mus musculus	Virus	miRNA	kshv-mir-K12-1(miR-K12-10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	Lymphocytes	-	Host	Protein	Bclaf1(Bcl-2-associated transcription factor 1)	http://www.ncbi.nlm.nih.gov/gene/72567	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	Indicate miR-K12-5, miR-K12-9  and miR-K12-10 repression of Bcl-2-associated transcription factor 1, an apoptosis-inducing factor.
VHID00010834	Kaposi's sarcoma-associated herpesvirus(KSHV)	Mus musculus	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	-	-	Host	Protein	Fos	http://www.ncbi.nlm.nih.gov/gene/14281	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00010835	Kaposi's sarcoma-associated herpesvirus(KSHV)	Mus musculus	Virus	miRNA	kshv-mir-K12-11(miR-K12-11)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002474	B cells	-	Host	Protein	Jarid2	http://www.ncbi.nlm.nih.gov/gene/16468	Downregulation	Luciferase reporter assay, Western blot analysis.	23185331	We demonstrate that retroviral-mediated gene transfer and hematopoietic progenitor cell transplantation into C57BL/6 mice leads to increased B-cell fractions in lymphoid organs, as well as to enhanced germinal center formation in both microRNA-expressing mouse cohorts. We furthermore identify Jarid2, a component of Polycomb repressive complex 2, as a novel validated target of miR-K12-11, and confirm its downregulation in miR-K12-11 as well as miR-155 expressing bone marrow cells.
VHID00010836	Kaposi's sarcoma-associated herpesvirus(KSHV)	Mus musculus	Virus	miRNA	kshv-mir-K12-5(miR-K12-5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	Lymphocytes	-	Host	Protein	Bclaf1(Bcl-2-associated transcription factor 1)	http://www.ncbi.nlm.nih.gov/gene/72567	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	Indicate miR-K12-5, miR-K12-9  and miR-K12-10 repression of Bcl-2-associated tran- scription factor 1, an apoptosis-inducing factor.
VHID00010837	Kaposi's sarcoma-associated herpesvirus(KSHV)	Mus musculus	Virus	miRNA	kshv-mir-K12-9(miR-K12-9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	Lymphocytes	-	Host	Protein	Bclaf1(Bcl-2-associated transcription factor 1)	http://www.ncbi.nlm.nih.gov/gene/72567	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	Indicate miR-K12-5, miR-K12-9  and miR-K12-10 repression of Bcl-2-associated tran- scription factor 1, an apoptosis-inducing factor.
VHID00010838	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-miR-M4-5P	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003924	Ovary,fibroblast cell line.	-	Host	mRNA	CEBPE(C/EBP)	http://www.ncbi.nlm.nih.gov/gene/396185	-	RNA isolation and miRNA northern blotting analysis, Luciferase reporter assays.	20680360	Using luciferase reporter assays, We showed that mdv1-miR-M4-5P and miR-155 efficiently targeted a common set of 3' untranslated regions(3'UTR) of six cellular genes(GPM6B, RREB1, c-Myb, MAP3K7IP2, PU.1 and C/EBP).
VHID00010839	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-miR-M4-5P	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003924	Ovary,fibroblast cell line.	-	Host	mRNA	GPM6B	http://www.ncbi.nlm.nih.gov/gene/418632	-	RNA isolation and miRNA northern blotting analysis, Luciferase reporter assays.	20680360	Using luciferase reporter assays, We showed that mdv1-miR-M4-5P and miR-155 efficiently targeted a common set of 3' untranslated regions(3'UTR) of six cellular genes(GPM6B, RREB1, c-Myb, MAP3K7IP2, PU.1 and C/EBP).
VHID00010840	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-miR-M4-5P	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003924	Ovary,fibroblast cell line.	-	Host	mRNA	MYB(c-Myb)	http://www.ncbi.nlm.nih.gov/gene/396244	-	RNA isolation and miRNA northern blotting analysis, Luciferase reporter assays.	20680360	Using luciferase reporter assays, We showed that mdv1-miR-M4-5P and miR-155 efficiently targeted a common set of 3' untranslated regions(3'UTR) of six cellular genes(GPM6B, RREB1, c-Myb, MAP3K7IP2, PU.1 and C/EBP).
VHID00010841	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-miR-M4-5P	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003924	Ovary,fibroblast cell line.	-	Host	mRNA	RREB1	http://www.ncbi.nlm.nih.gov/gene/395920	-	RNA isolation and miRNA northern blotting analysis, Luciferase reporter assays.	20680360	Using luciferase reporter assays, We showed that mdv1-miR-M4-5P and miR-155 efficiently targeted a common set of 3' untranslated regions(3'UTR) of six cellular genes(GPM6B, RREB1, c-Myb, MAP3K7IP2, PU.1 and C/EBP).
VHID00010842	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-miR-M4-5P	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003924	Ovary,fibroblast cell line.	-	Host	mRNA	SPI1(PU.1)	http://www.ncbi.nlm.nih.gov/gene/6688	-	RNA isolation and miRNA northern blotting analysis, Luciferase reporter assays.	20680360	Using luciferase reporter assays, We showed that mdv1-miR-M4-5P and miR-155 efficiently targeted a common set of 3' untranslated regions(3'UTR) of six cellular genes(GPM6B, RREB1, c-Myb, MAP3K7IP2, PU.1 and C/EBP).
VHID00010843	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-miR-M4-5P	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003924	Ovary,fibroblast cell line.	-	Host	mRNA	TAB2(MAP3K7IP2)	http://www.ncbi.nlm.nih.gov/gene/421622	-	RNA isolation and miRNA northern blotting analysis, Luciferase reporter assays.	20680360	Using luciferase reporter assays, We showed that mdv1-miR-M4-5P and miR-155 efficiently targeted a common set of 3' untranslated regions(3'UTR) of six cellular genes(GPM6B, RREB1, c-Myb, MAP3K7IP2, PU.1 and C/EBP).
VHID00010844	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-mir-M3(MDV1-miR-M3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005095	DF-1 cells	-	Host	Protein	SMAD2	http://www.ncbi.nlm.nih.gov/gene/395247	Downregulation	Western blotting, and stem-loop qRT-PCR, semiquantitative RT-PCR, Immunohistochemistry (IHC), Cell viability assays, Dual luciferase reporter assay.	20962090	MDV1-miR-M3 suppressed cisplatin-induced apoptosis by directly downregulating expression at the protein but not the mRNA level of Smad2, a critical component in the transforming growth factor beta signal pathway.
VHID00010845	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-mir-M3(miR-M3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005095	-	-	Host	Protein	SMAD2	http://www.ncbi.nlm.nih.gov/gene/395247	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00010846	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-mir-M4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005096	-	-	Host	mRNA	BCL2L13	http://www.ncbi.nlm.nih.gov/gene/418163	Downregulation	Western blot analysis.	18945769	Thus, the reporter assays demonstrated that targets such as PU.1, CEBPE, HIVEP2, BCL2L13, and PDCD6 can be negatively regulated by both gga-miR-155 and MDV-1-miR-M4.
VHID00010847	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-mir-M4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005096	-	-	Host	mRNA	CEBPE(C/EBP)	#	-	MicroRNA microarray, Northern blotting, Western blot analysis, indicator reporter assay, Luciferase reporter assays, quantitative real-time PCR analysis.	18945769	Thus, the reporter assays demonstrated that targets such as PU.1, CEBPE, HIVEP2, BCL2L13, and PDCD6 can be negatively regulated by both gga-miR-155 and MDV-1-miR-M4.
VHID00010848	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-mir-M4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005096	-	-	Host	mRNA	HIVEP2	http://www.ncbi.nlm.nih.gov/gene/421672	-	MicroRNA microarray, Northern blotting, Western blot analysis, indicator reporter assay, Luciferase reporter assays, quantitative real-time PCR analysis.	18945769	Thus, the reporter assays demonstrated that targets such as PU.1, CEBPE, HIVEP2, BCL2L13, and PDCD6 can be negatively regulated by both gga-miR-155 and MDV-1-miR-M4.
VHID00010849	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-mir-M4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005096	-	-	Host	mRNA	PDCD6	http://www.ncbi.nlm.nih.gov/gene/420988	Downregulation	Western blot analysis.	18945769	Thus, the reporter assays demonstrated that targets such as PU.1, CEBPE, HIVEP2, BCL2L13, and PDCD6 can be negatively regulated by both gga-miR-155 and MDV-1-miR-M4.
VHID00010850	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-mir-M4	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005096	-	-	Host	mRNA	SPI1(PU.1)	http://www.ncbi.nlm.nih.gov/gene/395879	Downregulation	Western blot analysis.	18945769	Thus, the reporter assays demonstrated that targets such as PU.1, CEBPE, HIVEP2, BCL2L13, and PDCD6 can be negatively regulated by both gga-miR-155 and MDV-1-miR-M4.
VHID00010851	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-mir-M4(miR-M4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005096	-	-	Host	Protein	C-MYB	http://www.ncbi.nlm.nih.gov/gene/396244	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00010852	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-mir-M4(miR-M4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005096	-	-	Host	Protein	CEBPE(C/EBP)	http://www.ncbi.nlm.nih.gov/gene/396185	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00010853	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-mir-M4(miR-M4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005096	-	-	Host	Protein	GPM6B	http://www.ncbi.nlm.nih.gov/gene/418632	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00010854	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-mir-M4(miR-M4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005096	-	-	Host	Protein	MAP3K7(MAP3K7I)	http://www.ncbi.nlm.nih.gov/gene/421622	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00010855	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-mir-M4(miR-M4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005096	-	-	Host	Protein	RREB1	http://www.ncbi.nlm.nih.gov/gene/395920	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00010856	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-mir-M4(miR-M4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005096	-	-	Host	Protein	SPI1(PU.1)	http://www.ncbi.nlm.nih.gov/gene/395879	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00010857	Merkel cell polyomavirus(MCPyV)	Homo sapiens	Virus	miRNA	mcv-miR-M1(MCV-miR-M1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010647	Merkel cell carcinomas	-	Host	Protein	Pik3cd(PIK3CD)	http://www.ncbi.nlm.nih.gov/gene/18707	Downregulation	Predicted.	21907614	MCV-miR-M1 has several potentially relevant predicted cellular targets, as revealed by in silico analysis. Two genes, PIK3CD and PSME3, are especially interesting because they are potentially involved in mediating the host immune response against MCPyV.
VHID00010858	Merkel cell polyomavirus(MCPyV)	Homo sapiens	Virus	miRNA	mcv-miR-M1(MCV-miR-M1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010647	Merkel cell carcinomas	-	Host	Protein	Psme3(PSME3)	http://www.ncbi.nlm.nih.gov/gene/19192	Downregulation	Predicted.	21907614	MCV-miR-M1 has several potentially relevant predicted cellular targets, as revealed by in silico analysis. Two genes, PIK3CD and PSME3, are especially interesting because they are potentially involved in mediating the host immune response against MCPyV.
VHID00010859	Murine cytomegalovirus(MCMV)	Mus musculus	Virus	miRNA	mcmv-mir-M23-2	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006253	-	-	Host	Protein	Cxcl16(CXCL16)	http://www.ncbi.nlm.nih.gov/gene/66102	Downregulation	Quantitative PCR analysis of viral transcripts, Dual luciferase experiments, Northern blot analysis.	20976200	Using 2'-O-methylated antisense oligonucleotide, we confirmed that the CXCL16 reporter regulation by miR-M23-2 could be inhibited in a sequence specific manner.
VHID00010860	Murine cytomegalovirus(MCMV)	Mus musculus	Virus	miRNA	mcmv-mir-M23-2(miR-M23-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006253	-	-	Host	Protein	Cxcl16(CXCL16)	http://www.ncbi.nlm.nih.gov/gene/66102	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VHID00010861	Package lentivirus(PLV)	Homo sapiens	Virus	miRNA	pLV-THM-miR-338-3p(miR-338-3p)	#	SW-620 cells	Upregulation	Host	Protein	SMO	http://www.ncbi.nlm.nih.gov/gene/6608	Downregulation	real-time reverse transcriptase polymerase chain reaction and Western blotting.	23599646	miR-338-3p could suppress CRC growth by inhibiting SMO protein expression.The recombinant viral vector encoding the pre-miR-338-3p or miR-338-3p-inhibitor and the two packaging plasmids psPAX2 and pMD2.G were cotransfected into human embryonic kidney 293T cells to package lentiVirus.
VHID00010862	Rhesus lymphocryptovirus(rLCV)	Macaca mulatta	Virus	miRNA	rlcv-mir-rL1-8(miR-rL1-8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003744	rLCV-infected rhesus macaquerLCLs	-	Host	Protein	NFKB1	http://www.ncbi.nlm.nih.gov/gene/710324	Downregulation	luciferase reporter assays, photoactivatable cross-linking and immunoprecipitation(PAR-CLIP), and deep sequencing and qRT-PCR.	24257599	These data demonstrate that miR-rL1-8 can functionally substitute for miRBART5 and that miR-BART5 and miR-BART16 negatively regulate NFKB signaling by directly targeting the LMP1 3'UTR.
VHID00010863	West Nile virus(WNV)	Anopheles gambiae	Virus	miRNA	kun-miR-1	#	Aedes albopictus C6/36 cells	-	Host	mRNA	GATA4	http://www.ncbi.nlm.nih.gov/gene/100329087	Upregulation	PCR, Northern blot analysis, Cloning approach.	22080551	Using cloning and bioinformatics approaches, we identified the cellular GATA4 mRNA as a target for KUN-miR-1.
VHID00010864	White spot syndrome virus(WSSV)	Shrimp	Virus	miRNA	WSSV-miR-N24	#	shrimp hemocytes	-	Host	Protein	caspase 8	#	-	Microarray analysis,Northern blotting.	24352447	In this study, the viral miRNAs from white spot syndrome virus (WSSV) were characterized in shrimp in vivo. As revealed by miRNA microarray analysis and Northern blotting, the expression of viral miRNAs was tissue specific in vivo. The results indicated that the viral miRNA WSSV-miR-N24 could target the shrimp caspase 8 gene, and this miRNA further repressed the apoptosis of shrimp hemocytes in vivo.  .
VVID00010865	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Virus	Protein	UL114	http://www.ncbi.nlm.nih.gov/gene/3077539	Downregulation	Luciferase assay, Computational predictions, Western blotting, Real-time PCR analysis.	19656885	Here we demonstrate that miR-UL112 also targets the UL114 gene, and we present evidence that the reduction of UL114 by miR-UL112 reduces its activity as uracil DNA glycosylase but only minimally affects virus growth.
VVID00010866	Autographa californica nucleopolyhedrovirus(AcMNPV)	Autographa californica	Virus	miRNA	AcMNPV-miR-1	#	Sf9 cells infected with AcMNPV (10 PFU/cell)	-	Virus	mRNA	odv-e25(ODV-E25) 	http://www.ncbi.nlm.nih.gov/gene/1488709	Downregulation	luciferase reporter assays, photoactivatable cross-linking and immunoprecipitation(PAR-CLIP), and deep sequencing and qRT-PCR.	24027316	Here we report the identification and characterization of an miRNA encoded by Autographa californica nucleopolyhedrovirus. The identified miRNA, AcMNPV-miR-1, perfectly matched a segment in the coding sequence of the viral gene ODV-E25 and downregulated ODV-E25 mRNA expression, which likely resulted in a reduction of infectious budded virions and accelerated the formation of occlusion-derived virions. .
VVID00010867	BK virus(BKV)	Homo sapiens	Virus	miRNA	bkv-mir-B1(miR-B1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0009981	-	-	Virus	Protein	LT-Ag	#	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, assays of acute infection and CTL reactivity in vivo, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00010868	Barley stripe mosaic virus(BSMV)	Triticum aestivum	Virus	miRNA	tae-MIR159a(pri-tae-miR159a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006170	-	-	Virus	Protein	Tamyb3(taMyb3)	http://www.ncbi.nlm.nih.gov/gene/780678	-	-	23665893	The results of the histological observation also supported these phenotype changes. Interestingly, vsiRNAs were also involved in the interactions between wheat and Pst through the tae-miR159-mediated regulation of taMyb3 expression. Moreover, these results also supported the speculation that vsiRNAs were generated from the same sites of pri-tae-miR159a. These studies indicated that vsiRNAs from miRNAs generating sites of pri-tae-miR159a based on the BSMV system play positive roles in the wheat response to Pst through the regulation of taMyb3 expression.
VVID00010869	Epstein-Barr virus(EBV)	Homo sapiens	Virus	SnoRNA	v-snoRNA1	#	-	-	Virus	Protein	BALF5	http://www.ncbi.nlm.nih.gov/gene/3783681	-	Fluorescent in situ hybridization, Co-Immunoprecipitation, Computational prediction of target sites in rRNAs, Quantitative real-time PCR.	19680535	Apotential target site of v-snoRNA1(24pp) was identified within the 3'-UTR of BALF5 mRNA which encodes the viral DNA polymerase.The viral DNA polymerase.BALF5 was identified as a potential target for vsnoRNA1(24pp). Taken together, these experiments strengthen the crucial function of v-snoRNA1 in EBV infection.
VVID00010870	Epstein-Barr virus(EBV)	Homo sapiens	Virus	SnoRNA	vsnoRNA124pp	#	latency III EBV infection cells	-	Virus	Protein	BALF5	http://www.ncbi.nlm.nih.gov/gene/3783681	Downregulation	Northern blot analysis,Co-Immunoprecipitation,Quantitative real-time PCR.	19680535	A potential target site of v-snoRNA124pp?was identified within the 3'-UTR of BALF5 mRNA which encodes the viral DNA polymerase.
VVID00010871	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-3p(miR-BART1-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003390	293T cells	-	Virus	Protein	BHRF1	http://www.ncbi.nlm.nih.gov/gene/3783706	Downregulation	Western blot analysis, PAR-CLIP, qRT-PCR for RISC-associated BHRF1 mRNAs,Luciferase reporter assays.	24257599	In addition to miR-BART10, we observed significant inhibition of the EBV BHRF1 3'UTR reporter in the presence of miR-BART1. miR-BART1-3p and its rLCV homolog, miR-rL1-6-3p, have seed matches (nt 2 to 8) to the EBV and rLCV BHRF1 3'UTRs, al-though the positions of the seed match sites and the miRNA inhibition are not conserved. .
VVID00010872	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(BART1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	-	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	In some cases, the target viral mRNA is regulated by multiple miRNAs. Several of the EBV BART miRNAs from a single genomic cluster(BART1-5p, BART3-5p, BART16, and BART17-5p) work together to down-regulate production of the EBV latency membrane protein 1(LMP1).
VVID00010873	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART1-5p(miR-BART1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	-	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, assays of acute infection and CTL reactivity in vivo, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00010874	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-3p(miR-BART17-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003716	Akata (KC207813),Raji (NC_007605.1),MutuI(KC207814) BL cells (51), C666 nasopharyngeal epithelial carci-noma(NPC) cells (EF103558), and other NPC isolates	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	luciferase reporter assays, photoactivatable cross-linking and immunoprecipitation(PAR-CLIP), and deep sequencing and qRT-PCR.	24257599	For the four EBV miRNAs inhibiting the LMP1 3' UTR reporter (Fig. 6A), we identified putative seed match sites for miRBART5-5p and miR-BART17-3p but not miR-BART3 or miRBART16 (Fig. 6C).
VVID00010875	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(BART17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	-	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	In some cases, the target viral mRNA is regulated by multiple miRNAs. Several of the EBV BART miRNAs from a single genomic cluster(BART1-5p, BART3-5p, BART16, and BART17-5p) work together to down-regulate production of the EBV latency membrane protein 1(LMP1).
VVID00010876	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(miR-BART17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003715	-	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, assays of acute infection and CTL reactivity in vivo, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00010877	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART17-5p(miR-BART17-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004990	NPC C666-1 cell line	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	TUNEL Assay, Western Blotting, EBER in Situ Hybridization (ISH), Immunohistochemical (IHC) Staining of LMP1, Northern Blotting, Luciferase Reporter Assay, Quantitative RT-PCR (QRT-PCR).	17911266	EBV-encoded BART miRNAs target the 3 UTR of the LMP1 gene and negatively regulate LMP1 protein expression. Four miRNAs (BART3-5p, 16, 17-5p, and 1-5p) were examined that LMP1 gene was a target of BART miRNAs.
VVID00010878	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART3-5p(BART3-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	-	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	In some cases, the target viral mRNA is regulated by multiple miRNAs. Several of the EBV BART miRNAs from a single genomic cluster(BART1-5p, BART3-5p, BART16, and BART17-5p) work together to down-regulate production of the EBV latency membrane protein 1(LMP1).
VVID00010879	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART5-5p(miR-BART5-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003413	EBV B95-8 LCLs and type III BL cells	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	PAR-CLIP .	24257599	Examination of the EBV LMP1 3'UTR by PAR-CLIP revealed four RISC-associated regions in Akata-LCLd3, two of which contained binding sites for miR-BART5-5p(7mer1A seed match) and the cellular miR-17/20/106 family ).
VVID00010880	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART5-5p(miRBART5-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003413	Akata (KC207813),Raji (NC_007605.1),MutuI(KC207814) BL cells (51), C666 nasopharyngeal epithelial carci-noma(NPC) cells (EF103558), and other NPC isolates	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	luciferase reporter assays, photoactivatable cross-linking and immunoprecipitation(PAR-CLIP), and deep sequencing and qRT-PCR.	24257599	For the four EBV miRNAs inhibiting the LMP1 3=UTR reporter (Fig. 6A), we identified putative seed match sites for miRBART5-5p and miR-BART17-3p but not miR-BART3 or miRBART16 (Fig. 6C).
VVID00010881	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART1(miR-BART1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001067	B cells	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	EBV miR-BART1, -16, and -17 reduce the  expression of EBV LMP1 to prevent its overexpression.LMP1 without a ligand drives proliferation of EBV-infected B cells by signaling within the B cells similar to the signaling of the cellular CD40 receptor.
VVID00010882	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART1(miR-BART1-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001067	-	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VVID00010883	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART1(mir-BART1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001067	B cell lymphomagenesis	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VVID00010884	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART1-5p(miR-BART1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000999	NPC C666-1 cell line	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	TUNEL Assay, Western Blotting, EBER in Situ Hybridization (ISH), Immunohistochemical (IHC) Staining of LMP1, Northern Blotting, Luciferase Reporter Assay, Quantitative RT-PCR (QRT-PCR).	17911266	EBV-encoded BART miRNAs target the 3 UTR of the LMP1 gene and negatively regulate LMP1 protein expression. Four miRNAs (BART3-5p, 16, 17-5p, and 1-5p) were examined that LMP1 gene was a target of BART miRNAs.
VVID00010885	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(miR-BART10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	293T cells	-	Virus	Protein	BHRF1	http://www.ncbi.nlm.nih.gov/gene/3783706	Downregulation	Western blot analysis, PAR-CLIP, qRT-PCR for RISC-associated BHRF1 mRNAs,Luciferase reporter assays.	24257599	In addition to miR-BART10, we observed significant inhibition of the EBV BHRF1 3'UTR reporter in the presence of miR-BART1. miR-BART1-3p and its rLCV homolog, miR-rL1-6-3p, have seed matches (nt 2 to 8) to the EBV and rLCV BHRF1 3'UTRs, al-though the positions of the seed match sites and the miRNA inhibition are not conserved. .
VVID00010886	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART10(mir-BART10)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003732	B cell lymphomagenesis	-	Virus	mRNA	BHRF1	http://www.ncbi.nlm.nih.gov/gene/3783706	-	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VVID00010887	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	MRC5 and HEK293T cells	-	Virus	mRNA	BRLF1	http://www.ncbi.nlm.nih.gov/gene/3783727	-	Predicted.	18378902	EBV(-herpesvirus) miR-BHRF1-3 and miR-BART15 likely target BZLF1 and BRLF1, which share their 3 UTR.
VVID00010888	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART15	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004988	MRC5 and HEK293T cells	-	Virus	mRNA	BZLF1	http://www.ncbi.nlm.nih.gov/gene/3783744	-	Predicted.	18378902	EBV(-herpesvirus) miR-BHRF1-3 and miR-BART15 likely target BZLF1 and BRLF1, which share their 3 UTR.
VVID00010889	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(BART16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	-	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	Cloning and quantitative PCR, subtractive hybridization of RNA transcripts (SHORT), soft agar growth assay.	20719877	In some cases, the target viral mRNA is regulated by multiple miRNAs. Several of the EBV BART miRNAs from a single genomic cluster(BART1-5p, BART3-5p, BART16, and BART17-5p) work together to down-regulate production of the EBV latency membrane protein 1(LMP1).
VVID00010890	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(miR-BART16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	-	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, assays of acute infection and CTL reactivity in vivo, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00010891	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(miR-BART16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	-	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VVID00010892	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(miR-BART16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	EBV B95-8 LCLs and type III BL cells	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	Western blot analysis, PAR-CLIP, qRT-PCR for RISC-associated BHRF1 mRNAs,Luciferase reporter assays.	24257599	miR-BART16 also inhibited pLSG-LMP1nt671 but not pLSG-LMP1nt692, indicating that miR-BART16 targets the 5'region of the LMP1 3'UTR.
VVID00010893	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART16(miR-BART16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004989	NPC C666-1 cell line	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	TUNEL Assay, Western Blotting, EBER in Situ Hybridization (ISH), Immunohistochemical (IHC) Staining of LMP1, Northern Blotting, Luciferase Reporter Assay, Quantitative RT-PCR (QRT-PCR).	17911266	EBV-encoded BART miRNAs target the 3 UTR of the LMP1 gene and negatively regulate LMP1 protein expression. Four miRNAs (BART3-5p, 16, 17-5p, and 1-5p) were examined that LMP1 gene was a target of BART miRNAs.
VVID00010894	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART17(miR-BART17-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004990	-	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VVID00010895	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART17(mir-BART17)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004990	B cell lymphomagenesis	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VVID00010896	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART19(mir-BART19)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004992	B cell lymphomagenesis	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VVID00010897	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART2(miR-BART2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001068	-	-	Virus	Protein	BALF5	http://www.ncbi.nlm.nih.gov/gene/3783681	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, assays of acute infection and CTL reactivity in vivo, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00010898	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART2(miR-BART2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001068	-	-	Virus	mRNA	BALF5	http://www.ncbi.nlm.nih.gov/gene/3783681	Downregulation	-	19158788	Destroyuser interface control1, called miR-BART2, was found to lie antisense to the EBV DNA polymerase gene BALF5 and was proposed to inhibit DNA polymerase expression by inducing cleavage of the cognate mRNA.
VVID00010899	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART2(miR-BART2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001068	HeLa cells	-	Virus	mRNA	BALF5	http://www.ncbi.nlm.nih.gov/gene/3783681	Downregulation	EBV load measurement, Transfections and luciferase assays, northern blot analysis and probe labelling, RNA Isolation, Ago2-mediated cleavage assays, Immunoprecipitation analysis.	18073197	Here we show that the EBV-encoded miRNA miR-BART2 down-regulates the viral DNA polymerase BALF5. MiR-BART2 guides cleavage within the 3'-untranslated region (3'UTR) of BALF5 by virtue of its complete complementarity to its target. .
VVID00010900	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART2(miR-BART2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001068	latency III EBV infection cells	-	Virus	mRNA	BALF5	http://www.ncbi.nlm.nih.gov/gene/3783681	Downregulation	Generation of monoclonal antibodies against BALF5 and Ago2,Immunoprecipitation analysis,Transfections and luciferase assays,RNA Isolation, northern blot analysis and probe labelling,Ago2-mediated cleavage assays,EBV load measurement.	18073197	MiR-BART2 guides cleavage within the 3'-untranslated region (3'UTR) of BALF5 by virtue of its complete complementarity to its target.?.
VVID00010901	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART2(mir-BART2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001068	B cell lymphomagenesis	-	Virus	mRNA	BLAF5	http://www.ncbi.nlm.nih.gov/gene/3783681	Downregulation	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VVID00010902	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART20(miR-BART20)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004993	LCLs	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	luciferase reporter assays, photoactivatable cross-linking and immunoprecipitation(PAR-CLIP), and deep sequencing and qRT-PCR.	24257599	Using luciferase reporter assays and by performing PAR-CLIP analysis of LCLs latently infected with EBV or rLCV, we show here that five EBV BART miRNAs (miR-BART3, miR-BART5, miR-BART16, miRBART17, and miR-BART20) and at least four rLCV BART miRNA homologs (miR-rL1-5, miR-rL1-8, miR-rL1-16, and miR-rL1-23) target LMP1 3'UTRs.
VVID00010903	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART21(miR-BART21)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010627	rLCV-infected rhesus macaquerLCLs	-	Virus	Protein	LMP1 	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	luciferase reporter assays, photoactivatable cross-linking and immunoprecipitation(PAR-CLIP), and deep sequencing and qRT-PCR.	24257599	Intriguingly, ectopic expression of miR-BART21 also inhibited luciferase expression from the rLCV LMP1 3'UTR reporter , consistent with our PAR-CLIP results demonstrating that the miR-BART21 homolog (miR-rL1-23) binds the rLMP1 mRNA.
VVID00010904	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(miR-BART22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	-	-	Virus	Protein	LMP2A(LMP-2a)	http://www.ncbi.nlm.nih.gov/gene/3783751	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, assays of acute infection and CTL reactivity in vivo, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00010905	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(miR-BART22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	Nasopharyngeal epithelial tissues	-	Virus	mRNA	LMP2A	http://www.ncbi.nlm.nih.gov/gene/3783751	-	Western Blot Analysis, Immunohistochemical Staining of LMP2A, Target Prediction, Quantitative Reverse Transcription-Polymerase Chain Reaction, Northern Blot Analysis, Luciferase Reporter Assay.	19881953	More importantly, we determined that the EBV latent membrane protein 2A (LMP2A) is the putative target of miR-BART22. LMP2A is a potent immunogenic viral antigen that is recognized by the cytotoxic T cells; down-modulation of LMP2A expression by miR-BART22 may permit escape of EBV-infected cells from host immune surveillance. Taken together, we demonstrated that two newly identified EBV-encoded miRNA are highly expressed in NPC. Our findings emphasize the role of miR-BART22 in modulating LMP2A expression, which may facilitate NPC carcinogenesis by evading the host immune response.
VVID00010906	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART22(mir-BART22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010628	B cell lymphomagenesis	-	Virus	mRNA	LMP2A	http://www.ncbi.nlm.nih.gov/gene/3783751	Downregulation	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VVID00010907	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3(miR-BART3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003725	LCLs	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	luciferase reporter assays, photoactivatable cross-linking and immunoprecipitation(PAR-CLIP), and deep sequencing and qRT-PCR.	24257599	Using luciferase reporter assays and by performing PAR-CLIP analysis of LCLs latently infected with EBV or rLCV, we show here that five EBV BART miRNAs (miR-BART3, miR-BART5, miR-BART16, miRBART17, and miR-BART20) and at least four rLCV BART miRNA homologs (miR-rL1-5, miR-rL1-8, miR-rL1-16, and miR-rL1-23) target LMP1 3'UTRs.
VVID00010908	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART3-5p(miR-BART3-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003410	NPC C666-1 cell line	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	TUNEL Assay, Western Blotting, EBER in Situ Hybridization (ISH), Immunohistochemical (IHC) Staining of LMP1, Northern Blotting, Luciferase Reporter Assay, Quantitative RT-PCR (QRT-PCR).	17911266	EBV-encoded BART miRNAs target the 3 UTR of the LMP1 gene and negatively regulate LMP1 protein expression. Four miRNAs (BART3-5p, 16, 17-5p, and 1-5p) were examined that LMP1 gene was a target of BART miRNAs.
VVID00010909	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART5(mir-BART5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003727	B cell lymphomagenesis	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	Western Blotting, Northern Blotting, Luciferase Reporter Assay.	23342366	EBV-encoded BART miRNAs target the 3'-UTRs of viral genes, such as LMP1, BALF5, and LMP2A genes, and negatively regulate expression of these viral genes.On the other hand, EBV miRNAs repress cellular proteins, which include p53 up-regulated modulator of apoptosis(PUMA), DICER1, and BIM.   Table 2  EBV-derived miRNAs and their target genes.
VVID00010910	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART6(miR-BART6-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003728	C666-1 cell	-	Virus	mRNA	EBNA2	http://www.ncbi.nlm.nih.gov/gene/17494192	Downregulation	Transfections of the miR-BART6-5p Antagomir, Northern Blotting, miRISC Loading Assay,EMSA assays.	20716523	We found that miR-BART6-5p RNAs suppress the EBNA2 viral oncogene required for transition from immunologically less responsive type I and type II latency to the more immunoreactive type III latency as well as Zta and Rta viral proteins essential for lytic replication, revealing the regulatory function of miR-BART6 in EBV infection and latency.
VVID00010911	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9( BART9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	SNK6 and SNT16 cells	Upregulation	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Upregulation	Immunoblotting, RT-real time PCR for EBV mRNAs, Validation of miRNA microarray, MiRNA microarray analysis and validation, Cell proliferation functional assay.	22102884	Our data indicate that BART9 is involved in NKTCL proliferation, and one of its mechanisms of action appears to be regulating LMP-1 levels.
VVID00010912	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BART9(miR-BART9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003731	NK/T-cell lymphoma cell line SNK6	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Upregulation	RNA Extraction and Quantitative Reverse Transcription PCR (QRT-PCR),Expression of BHRF1 and Northern Blot,AGO2 Co-Immunoprecipitation,Induction of Viral Lytic Cycle in NPC Cell Lines,Plasmid Constructs,In Vitro Processing Assay.	22102884	Ranakrishnan et al. showed that miR-BART9 from the NK/T-cell lymphoma cell line SNK6 could increase viral LMP1 expression. This might be the key mechanism of EBV to promote cell growth.
VVID00010913	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	MRC5 and HEK293T cells	-	Virus	mRNA	BRLF1	http://www.ncbi.nlm.nih.gov/gene/3783727	-	Predicted.	18378902	EBV(-herpesvirus) miR-BHRF1-3 and miR-BART15 likely target BZLF1 and BRLF1, which share their 3 UTR.
VVID00010914	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-mir-BHRF1-3	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001066	MRC5 and HEK293T cells	-	Virus	mRNA	BZLF1	http://www.ncbi.nlm.nih.gov/gene/3783744	-	Predicted.	18378902	EBV(-herpesvirus) miR-BHRF1-3 and miR-BART15 likely target BZLF1 and BRLF1, which share their 3 UTR.
VVID00010915	Hepatitis B virus(HBV)	Mus musculus	Virus	ShRNA	U6 shRNA 5	#	-	-	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	Downregulation	Northern blot hybridization, Expression and processing of shRNA, shRNA expression cassettes and synthetic siRNA, Assessment of in vivo efficacy of anti-HBV shRNA constructs, Quantitative PCR, Statistical analysis.	16337206	Effective inhibition of HBV replication in vivo by anti-HBx short hairpin RNAs. Two shRNAs (shRNA 5 and shRNA 6) showed knockdown of HBV markers by 80-100% in transfected hepatocytes and also in a murine hydrodynamic injection model of HBV replication.
VVID00010916	Hepatitis B virus(HBV)	Mus musculus	Virus	ShRNA	U6 shRNA 6	#	-	-	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	Downregulation	Northern blot hybridization, Expression and processing of shRNA, shRNA expression cassettes and synthetic siRNA, Assessment of in vivo efficacy of anti-HBV shRNA constructs, Quantitative PCR, Statistical analysis.	16337206	Effective inhibition of HBV replication in vivo by anti-HBx short hairpin RNAs. Two shRNAs (shRNA 5 and shRNA 6) showed knockdown of HBV markers by 80-100% in transfected hepatocytes and also in a murine hydrodynamic injection model of HBV replication.
VVID00010917	Herpes B virus(BV)	Homo sapiens	Virus	miRNA	hbv-mir-B20(miRNA 20)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0011557	BV-infected cells	-	Virus	Protein	ICP34.5	#	-	-	19144716	BV miRNA 20 is antisense relative to a sequence that, in HSV, would encode ICP34.5 and be the only antisense target for this miRNA (20). ICP34.5 is an important HSV neurovirulence factor.
VVID00010918	Herpes B virus(BV)	Homo sapiens	Virus	miRNA	hbv-mir-B2RC(miRNA 2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0011555	BV-infected cells	-	Virus	Protein	UL30	#	Downregulation	Northern blot hybridization, statistical analysis.	19144716	BV miRNA 2 is antisense relative to a sequence k100 nt upstream of the initiating AUG of the UL30 gene, which encodes the catalytic subunit of the DNA polymerase. Therefore, miRNA 2 may regulate the expression of UL30 in the same way that the EBV-encoded miRNA miR-BART2 regulates the expression of the EBV DNA polymerase.
VVID00010919	Herpes simplex virus 1(HSV-1)	Homo sapiens	Virus	miRNA	hsv1-miR-H2-3p (miR-H2-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0008399	neurons	-	Virus	mRNA	ICP0	#	Downregulation	Predicted.	19158788	One of these miRNAs, miR-H2-3p, lies antisense to the viral immediate early gene ICP0 and has been shown to downregulate ICP0 protein expression.
VVID00010920	Herpes simplex virus 1(HSV-1)	Homo sapiens	Virus	miRNA	hsv1-miR-H2-3p(miR-H2-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0008399	-	-	Virus	Protein	ICP0	#	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00010921	Herpes simplex virus 1(HSV-1)	Homo sapiens	Virus	miRNA	hsv1-mir-H2(miR-H2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0008937	neuronal cells	-	Virus	mRNA	ICP0	#	Downregulation	Luciferase assays.	23536669	Analysis of mRNA and protein expression, as well as assays mapping viral miRNA binding sites in infected cells, showed that endogenous HSV-1 miR-H2 binds to viral ICP0 mRNA and inhibits its expression,while endogenous miR-H4 inhibits the expression of the viral ICP34.5 gene. In contrast, no viral mRNA target for miR-H3 could be detected, even though miR-H3, like miR-H4, is perfectly complementary to ICP34.5 mRNA.
VVID00010922	Herpes simplex virus 1(HSV-1)	Homo sapiens	Virus	miRNA	hsv1-mir-H2(miR-H2-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0008937	-	-	Virus	mRNA	ICP0	#	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VVID00010923	Herpes simplex virus 1(HSV-1)	Homo sapiens	Virus	miRNA	hsv1-mir-H2(miR-H2-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0008937	-	Downregulation	Virus	Protein	ICP0	#	Downregulation	Standard techniques, Northern and Western blot analyses, Stem-loop RT-PCR methods, RNA harvested for RT-PCR analysis.	18596690	We show that LAT functions as a primary microRNA (miRNA) precursor that encodes four distinct miRNAs in HSV-1 infected cells. One of these miRNAs, miR-H2-3p, is transcribed antisense to ICP0, a viral immediate-early transcriptional activator thought to play a key role in productive HSV-1 replication and reactivation from latency3. miR-H2-3p is indeed able to reduce ICP0 protein expression, but does not significantly affect ICP0 mRNA levels.
VVID00010924	Herpes simplex virus 1(HSV-1)	Homo sapiens	Virus	miRNA	hsv1-mir-H3(miR-H3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0008938	neurons	-	Virus	mRNA	ICP34.5	#	Downregulation	Predicted.	19158788	In addition to miR-H2-3p lying antisense to ICP0, HSV-1 miR-H3 and miR-H4 also lie antisense to the gene encoding the pathogenicity factor ICP34.5 and, based on genetic data, were proposed to inhibit ICP34.5 expression in latently infected neurons.
VVID00010925	Herpes simplex virus 1(HSV-1)	Homo sapiens	Virus	miRNA	hsv1-mir-H4(miR-H4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0008939	neuronal cells	-	Virus	mRNA	ICP34.5	#	Downregulation	Luciferase assays.	23536669	Analysis of mRNA and protein expression, as well as assays mapping viral miRNA binding sites in infected cells, showed that endogenous HSV-1 miR-H2 binds to viral ICP0 mRNA and inhibits its expression,while endogenous miR-H4 inhibits the expression of the viral ICP34.5 gene. In contrast, no viral mRNA target for miR-H3 could be detected, even though miR-H3, like miR-H4, is perfectly complementary to ICP34.5 mRNA.
VVID00010926	Herpes simplex virus 1(HSV-1)	Homo sapiens	Virus	miRNA	hsv1-mir-H4(miR-H4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0008939	neurons	-	Virus	mRNA	ICP34.5	#	Downregulation	Predicted.	19158788	In addition to miR-H2-3p lying antisense to ICP0, HSV-1 miR-H3 and miR-H4 also lie antisense to the gene encoding the pathogenicity factor ICP34.5 and, based on genetic data, were proposed to inhibit ICP34.5 expression in latently infected neurons.
VVID00010927	Herpes simplex virus 1(HSV-1)	Homo sapiens	Virus	miRNA	hsv1-mir-H6(miR-H6)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0008941	-	-	Virus	Protein	ICP4	#	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00010928	Herpes simplex virus 1(HSV-1)	Homo sapiens	Virus	miRNA	hsv1-mir-H6(miR-H6)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0008941	-	-	Virus	mRNA	ICP5	#	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VVID00010929	Herpes simplex virus 1(HSV-1)	Homo sapiens	Virus	miRNA	hsv1-mir-H6(miR-H6)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0008941	-	Downregulation	Virus	Protein	ICP4	#	Downregulation	Standard techniques, Northern and Western blot analyses, Stem-loop RT-PCR methods, RNA harvested for RT-PCR analysis.	18596690	We also identified a fifth HSV-1 miRNA in latently infected trigeminal ganglia, miR-H6, which derives from a previously unknown transcript distinct from LAT. miR-H6 displays extended seed complementarity to the mRNA encoding a second HSV-1 transcription factor, ICP4, and inhibits expression of ICP4, which is required for expression of most HSV-1 genes during productiveinfection.
VVID00010930	Herpes simplex virus 2(HSV-2)	Homo sapiens	Virus	miRNA	hsv2-mir-H2(miR-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010694	-	-	Virus	Protein	ICP34.5	#	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00010931	Herpes simplex virus 2(HSV-2)	Homo sapiens	Virus	miRNA	hsv2-mir-H3(miR-3)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010692	-	-	Virus	Protein	ICP0	#	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00010932	Herpes simplex virus 2(HSV-2)	Homo sapiens	Virus	miRNA	hsv2-mir-H3(miR-I)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0010692	-	-	Virus	mRNA	ICP34.5	#	Downregulation	-	19158788	miR-I reduces ICP34.5 protein and mRNA expression when overexpressed in HSV-2 infected cells in culture.
VVID00010933	Herpes simplex virus 2(HSV-2)	Homo sapiens	Virus	miRNA	miR-I	#	-	-	Virus	Protein	ICP34.5	#	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00010934	Herpes simplex virus 2(HSV-2)	Homo sapiens	Virus	miRNA	miR-I	#	Neurons	-	Virus	Protein	ICP34.5	#	Downregulation	Real-time PCR, transfection, Plasmids, Northern blotting, Oligonucleotide probes and RNA oligonucleotides, and dual luciferase assay.	19019961	We further show that, similar to miR-I, miR-II is able to efficiently silence the expression of ICP34.5, a key viral neurovirulence factor, and that miR-III is able to silence the expression of ICP0, a key viral transactivator. All these data suggest that LAT sequences likely contribute to HSV latency and reactivation through tight control of these LAT-encoded miRNAs and their viral targets.
VVID00010935	Herpes simplex virus 2(HSV-2)	Homo sapiens	Virus	miRNA	miR-II	#	Neurons	-	Virus	Protein	ICP34.5	#	Downregulation	Real-time PCR, transfection, Plasmids, Northern blotting, Oligonucleotide probes and RNA oligonucleotides, and dual luciferase assay.	19019961	We further show that, similar to miR-I, miR-II is able to efficiently silence the expression of ICP34.5, a key viral neurovirulence factor, and that miR-III is able to silence the expression of ICP0, a key viral transactivator. All these data suggest that LAT sequences likely contribute to HSV latency and reactivation through tight control of these LAT-encoded miRNAs and their viral targets.
VVID00010936	Herpes simplex virus 2(HSV-2)	Homo sapiens	Virus	miRNA	miR-III	#	Neurons	-	Virus	Protein	ICP0	#	Downregulation	Real-time PCR, Northern blotting, Oligonucleotide probes and RNA oligonucleotides, and dual luciferase assay.	19019961	We further show that, similar to miR-I, miR-II is able to efficiently silence the expression of ICP34.5, a key viral neurovirulence factor, and that miR-III is able to silence the expression of ICP0, a key viral transactivator. All these data suggest that LAT sequences likely contribute to HSV latency and reactivation through tight control of these LAT-encoded miRNAs and their viral targets.
VVID00010937	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Virus	mRNA	UL123(IE72/IE1)	http://www.ncbi.nlm.nih.gov/gene/3077513	Downregulation	-	19158788	As noted above, miR-UL112-1 has also been reported to downregulate the viral IE72/IE1 immediate early protein in hCMV-infected cells (Table 1), thus providing the first example of a viral miRNA that targets both viral and cellular mRNAs.
VVID00010938	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(hcmv-miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	MRC5 and HEK293T cells	-	Virus	mRNA	UL123(IE1)	http://www.ncbi.nlm.nih.gov/gene/3077513	Downregulation	Luciferase report,Transfection experiment.	18378902	HCMV IE1 protein synthesis is suppressed by by miR-UL-112-1.
VVID00010939	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Virus	Protein	IE1	#	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, assays of acute infection and CTL reactivity in vivo, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00010940	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Virus	Protein	IE72	#	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, assays of acute infection and CTL reactivity in vivo, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00010941	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Virus	Protein	UL114	http://www.ncbi.nlm.nih.gov/gene/3077539	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, assays of acute infection and CTL reactivity in vivo, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00010942	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Virus	mRNA	IE1	#	Downregulation	-	22568714	Table2. Human CMV miRNAs and their functions. Inhibits HCMV IE1 gene expression, and acts as an immune response inhibitor to help viral replication.Inhibits HCMV IE1 gene expression, and acts as an immune response inhibitor to help viral replication Specifically downregulates MICB expression during viral infection, leading to decreased binding of NKG2D and reduced killing by NK cells.
VVID00010943	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Virus	mRNA	IE72	http://www.ncbi.nlm.nih.gov/gene/5495302	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VVID00010944	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Virus	mRNA	UL112	http://www.ncbi.nlm.nih.gov/gene/3077495	Downregulation	-	22568714	Table2. Human CMV miRNAs and their functions. Inhibits HCMV IE1 gene expression, and acts as an immune response inhibitor to help viral replication.Inhibits HCMV IE1gene expression, and acts as an immune response inhibitor to help viral replication Specifically downregulates MICB expression during viral infection, leading to decreased binding of NKG2D and reduced killing by NK cells.
VVID00010945	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Virus	mRNA	UL112	http://www.ncbi.nlm.nih.gov/gene/3077495	Downregulation	Luciferase reporters.	17983268	The potential target sites were screened using luciferase reporters that contain the HCMV 3'UTRs in co-transfection assays with miR-UL112-1. Three of the 14 HCMV miRNA targets were validated, including the major immediate early gene encoding IE72 (UL123, IE1), UL112/113, and UL120/121. .
VVID00010946	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Virus	mRNA	UL114	http://www.ncbi.nlm.nih.gov/gene/3077539	Downregulation	-	22568714	Table2. Human CMV miRNAs and their functions. Inhibits HCMV IE1 gene expression, and acts as an immune response inhibitor to help viral replication.Inhibits HCMV IE1gene expression, and acts as an immune response inhibitor to help viral replication Specifically downregulates MICB expression during viral infection, leading to decreased binding of NKG2D and reduced killing by NK cells.
VVID00010947	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Virus	mRNA	UL117	http://www.ncbi.nlm.nih.gov/gene/3077511	Downregulation	-	22568714	Table2. Human CMV miRNAs and their functions. Inhibits HCMV IE1 gene expression, and acts as an immune response inhibitor to help viral replication.Inhibits HCMV IE1gene expression, and acts as an immune response inhibitor to help viral replication Specifically downregulates MICB expression during viral infection, leading to decreased binding of NKG2D and reduced killing by NK cells.
VVID00010948	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Virus	mRNA	UL123(IE1)	http://www.ncbi.nlm.nih.gov/gene/3077513	Downregulation	Luciferase reporters.	17983268	Bioinformatics analysis of the known HCMV mRNA 3' untranslated regions (UTRs) revealed 14 potential viral transcripts that were predicted to contain functional target sites for miR-UL112-1. Three of the 14 HCMV miRNA targets were validated, including the major immediate early gene encoding IE72 (UL123, IE1), UL112/113, and UL120/121. miR-UL112-1 Negatively Regulates Expression from Vectors Containing the HCMV 39UTRs of IE72, UL112/113, and UL120/121.
VVID00010949	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	Normal human dermal fibroblast(NHDF) cells(Clonetics) and human U373 cells	-	Virus	mRNA	UL113	#	-	Luciferase reporters.	17983268	The potential target sites were screened using luciferase reporters that contain the HCMV 3'UTRs in co-transfection assays with miR-UL112-1. Three of the 14 HCMV miRNA targets were validated, including the major immediate early gene encoding IE72 (UL123, IE1), UL112/113, and UL120/121. .
VVID00010950	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	Normal human dermal fibroblast(NHDF) cells(Clonetics) and human U373 cells	-	Virus	mRNA	UL120	http://www.ncbi.nlm.nih.gov/gene/3077520	-	Luciferase reporters.	17983268	The potential target sites were screened using luciferase reporters that contain the HCMV 3'UTRs in co-transfection assays with miR-UL112-1. Three of the 14 HCMV miRNA targets were validated, including the major immediate early gene encoding IE72 (UL123, IE1), UL112/113, and UL120/121. .
VVID00010951	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	Normal human dermal fibroblast(NHDF) cells(Clonetics) and human U373 cells	-	Virus	mRNA	UL121	http://www.ncbi.nlm.nih.gov/gene/3077529	-	Luciferase reporters.	17983268	The potential target sites were screened using luciferase reporters that contain the HCMV 3'UTRs in co-transfection assays with miR-UL112-1. Three of the 14 HCMV miRNA targets were validated, including the major immediate early gene encoding IE72 (UL123, IE1), UL112/113, and UL120/121. .
VVID00010952	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL112(miR-UL112-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001680	-	-	Virus	mRNA	IE72	http://www.ncbi.nlm.nih.gov/gene/5495302	Downregulation	Luciferase assay, Western blot analysis, miRNA expression cassettes, Sequence analysis, miR-US25-1 KO virus, RT-PCR analysis, RNA induced silencing complex immunoprecipitation(RISC-IP) techniques.	20585629	Previously,we demonstrated that the HCMV encoded miRNA, miR-UL112-1, targets a number of the virus's own genes, including the immediate early transactivator IE72 which is essential for driving acute replication of HCMV.
VVID00010953	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-UL36(hcmv-miR-UL36)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001679	HEK293 cells	-	Virus	Protein	UL138	http://www.ncbi.nlm.nih.gov/gene/3077420	Downregulation	Luciferase reporter assays,Western blot,hybrid PCR.	23938381	Fifteen putative targets of hcmv-miR-UL36 were identified using hybrid PCR, one being the HCMV UL138 gene that has previously been identified as a novel latency-associated determinant of HCMV infection.Down-regulation of UL138 expression by hcmv-miR-UL36 was validated using luciferase reporter assays and Western blot analysis in HEK293 cells.
VVID00010954	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US5-1(miR-US5-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001682	-	-	Virus	mRNA	US7	http://www.ncbi.nlm.nih.gov/gene/3077535	-	-	22568714	Table2. Human CMV miRNAs and their functions. Inhibits HCMV IE1 gene expression, and acts as an immune response inhibitor to help viral replication.Inhibits HCMV IE2gene expression, and acts as an immune response inhibitor to help viral replication Speciflly downregulates MICB expression during viral infection, leading to decreased binding of NKG2D and reduced killing by NK cells.
VVID00010955	Human cytomegalovirus(HCMV)	Homo sapiens	Virus	miRNA	hcmv-mir-US5-2(miR-US5-2)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001683	-	-	Virus	mRNA	US7	http://www.ncbi.nlm.nih.gov/gene/3077535	-	-	22568714	Table2. Human CMV miRNAs and their functions. Inhibits HCMV IE1 gene expression, and acts as an immune response inhibitor to help viral replication.Inhibits HCMV IE3gene expression, and acts as an immune response inhibitor to help viral replication Speciflly downregulates MICB expression during viral infection, leading to decreased binding of NKG2D and reduced killing by NK cells.
VVID00010956	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-miR-N367	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006104	CD4+ T lymphocytes cells	-	Virus	mRNA	nef(Nef)	http://www.ncbi.nlm.nih.gov/gene/156110	Downregulation	Luciferase assay.	22936931	Table 1 includes the RNAi pathway related gene products that are targeted by HIV-1 microRNAs. List of published HIV-1 microRNAs and their target HIV-1 and cellular gene products.The target interactions of HIV-1 microRNAs with its mRNA seem to function as viral genome regulators.
VVID00010957	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-miR-TAR-3p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0006017	CD4+ T lymphocytes	-	Virus	mRNA	TARDBP(TAR)	#	Downregulation	Luciferase assays.	22936931	Table 1 includes the RNAi pathway related gene products that are targeted by HIV-1 microRNAs. List of published HIV-1 microRNAs and their target HIV-1 and cellular gene products.The target interactions of HIV-1 microRNAs with its mRNA seem to function as viral genome regulators.
VVID00010958	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-miR-TAR-3p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0006017	CD4+ T lymphocytes cells	-	Virus	mRNA	RITS	#	Downregulation	Luciferase assay.	22936931	Table 1 includes the RNAi pathway related gene products that are targeted by HIV-1 microRNAs. List of published HIV-1 microRNAs and their target HIV-1 and cellular gene products.The target interactions of HIV-1 microRNAs with its mRNA seem to function as viral genome regulators.
VVID00010959	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-miR-TAR-5p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0006016	CD4+ T lymphocytes	-	Virus	mRNA	LTR	http://www.ncbi.nlm.nih.gov/gene/8303958	Downregulation	Luciferase assay.	22936931	Table 1 includes the RNAi pathway related gene products that are targeted by HIV-1 microRNAs. List of published HIV-1 microRNAs and their target HIV-1 and cellular gene products.The target interactions of HIV-1 microRNAs with its mRNA seem to function as viral genome regulators.
VVID00010960	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-miR-TAR-5p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0006016	CD4+ T lymphocytes	-	Virus	mRNA	TAR	#	Downregulation	Luciferase assay.	22936931	Table 1 includes the RNAi pathway related gene products that are targeted by HIV-1 microRNAs. List of published HIV-1 microRNAs and their target HIV-1 and cellular gene products.The target interactions of HIV-1 microRNAs with its mRNA seem to function as viral genome regulators.
VVID00010961	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-miR-TAR-5p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0006016	CD4+ T lymphocytes cells	-	Virus	mRNA	RITS	#	Downregulation	Luciferase assay.	22936931	Table 1 includes the RNAi pathway related gene products that are targeted by HIV-1 microRNAs. List of published HIV-1 microRNAs and their target HIV-1 and cellular gene products.The target interactions of HIV-1 microRNAs with its mRNA seem to function as viral genome regulators.
VVID00010962	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-H1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006106	Human blood mononuclear cells	-	Virus	Protein	vpr	http://www.ncbi.nlm.nih.gov/gene/155807	Downregulation	FACS analysis, trypan-blue dye exclusion method, microarray analysis, Real-Time PCR, Bioinformatic analysis.	19082544	Further, hiv1-mir-H1 had the capacity to downregulate expression of cellular miR149 gene recognized to target Vpr gene encoded by HIV-1. Based upon these findings, we propose an "Epigenomic Pathway" through which hiv1-mir-H1 induced AATF gene knockdown within human mononuclear cells initiates their apoptosis.
VVID00010963	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-H1(miR-H1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006106	CD4+ T cells	-	Virus	Protein	LTR	http://www.ncbi.nlm.nih.gov/gene/8303958	-	-	22833062	Table1 cellular microRNAs interacting with HIV and putative HIV-encoded microRNAs and their proposed role. Cleaveage of apoptosis antagonizing transcription factor and degradation of gene products.
VVID00010964	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-N367(miR-N367)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006104	-	-	Virus	Protein	LTR	#	Downregulation	Northern blot analysis, Immunoblotting, Luc assay.	15722536	The miR-N367 could reduce HIV-1 LTR promoter activity through the negative responsive element of the U3 region in the 5'-LTR. Therefore, nef miRNA produced in HIV-1-infected cells may downregulate HIV-1 transcription through both a post-transcriptional pathway and a transcriptional neo-pathway.
VVID00010965	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-N367(miR-N367)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006104	-	-	Virus	Protein	nef(Nef)	http://www.ncbi.nlm.nih.gov/gene/156110	Downregulation	Confocal laser microscopy analysis, Northern blot analysis, antigen capture assay, Luc assay, Flow cytometric analysis, Semi-quantitative RT-PCR analysis.	15601474	These data suggest that nef/U3 miRNAs produced in HIV-1-infected cells may suppress both Nef function and HIV-1 virulence through the RNAi pathway.Nef-derived miRNAs are produced in HIV-1 persistently infected cells and nef short hairpin RNA (shRNA) that corresponded to a predicted nef miRNA (~25 nt, miR-N367) can block HIV-1 Nef expression in vitro  and the suppression by shRNA/miR-N367 would be related with low viremia in an LTNP .
VVID00010966	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-N367(miR-N367)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006104	-	-	Virus	Protein	nef(Nef)	http://www.ncbi.nlm.nih.gov/gene/156110	Downregulation	Northern blot analysis, Immunoblotting, Luc assay.	15722536	In the study reported here, nef-derived miRNAs in HIV-1-infected and nef transduced cells were identified, and showed that HIV-1 transcription was suppressed by nef-expressing miRNA, miR-N367, in human T cells.
VVID00010967	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	-	-	Virus	Protein	tat	http://www.ncbi.nlm.nih.gov/gene/155871	-	-	11725049	Short basic peptides that competed full-length tat from complexes with TAR RNA also inhibited tat stimulation of transcription, whereas short basic peptide unable to bind TAR or compete tat from complexes were also unable to inhibit tat stimulation of transcription. These data confirm that active HIV-1 tat must first interact with TAR RNA via basic amino acid residues in order to stimulate transcription of downstream sequences.
VVID00010968	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	-	-	Virus	Protein	tat	http://www.ncbi.nlm.nih.gov/gene/155871	-	Annealing two short synthetic oligoribonucleotides.	8450529	The binding site for tat on TAR RNA was analysed by preparing a series of model RNA substrates carrying site-specific functional group modifications. The test RNAs were prepared by annealing two short synthetic oligoribonucleotides to form a duplex structure with a U-rich bulge and flanking sequences identical to TAR RNA. We conclude that tat forms multiple specific hydrogen bonds to a series of dispersed sites displayed in the major groove of the TAR RNA molecule. These include the N3-H of U23, the N7 of G26, the N7 of A26 and the phosphate between A22 and U23.
VVID00010969	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	-	-	Virus	Protein	tat	http://www.ncbi.nlm.nih.gov/gene/155871	-	Dual-label competition filter binding assay.	8450553	The binding site for tat protein on TAR RNA has been defined in quantitative terms using an extensive series of mutations. The relative dissociation constants for the mutant TAR RNAs were measured using a dual-label competition filter binding assay in which 35S-labelled wild-type TAR RNA(K1) was competed against 3H-labelled mutant TAR RNA(K2).
VVID00010970	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	-	-	Virus	Protein	tat	http://www.ncbi.nlm.nih.gov/gene/155871	-	Electron paramagnetic resonance (EPR) spectroscopy.	12475232	Electron paramagnetic resonance (EPR) spectroscopy was utilized to investigate the correlation between RNA structure and RNA internal dynamics in complexes of HIV-1 TAR RNA with small molecules. TAR RNAs containing single nitroxide spin-labels in the 2'-position of U23, U25, U38, or U40 were incubated with compounds known to inhibit TAR-Tat complex formation.
VVID00010971	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	-	-	Virus	Protein	tat	http://www.ncbi.nlm.nih.gov/gene/155871	-	NMR experiments, Amide derivative of arginine experiments.	9518494	Formation of a specific complex between the HIV Tat protein and the small RNA element TAR is critical for activation of viral transcription. A model complex for this interaction composed of HIV-2 TAR and the amide derivative of arginine has been developed to study how Tat and TAR interact specifically. .
VVID00010972	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	-	-	Virus	Protein	tat	http://www.ncbi.nlm.nih.gov/gene/155871	-	Proteolytic digestions, MALDI-TOF mass spectrometric analysis.	9485463	The Human Immunodeficiency Virus type 1 Tat protein interacts specifically with a U-rich bulge within an RNA stem-loop known as the trans-activation responsive region(TAR) that occurs in all viral transcripts. We have identified the cross-linked amino acid as Arg55 in the basic region of the Tat peptide by use of a combination of proteolytic digestions and MALDI-TOF mass spectrometric analysis.
VVID00010973	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	-	-	Virus	Protein	tat	http://www.ncbi.nlm.nih.gov/gene/155871	-	Ribonuclease protection technique, Mutagenic analysis of TAR.	1868081	Substantial evidence indicates that HIV-1 trans-activation by tat protein is mediated through the TAR RNA element.
VVID00010974	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	-	-	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Interproton distance and dihedral angle constraint, Hydrogen bonding, NMR spectroscop, Structure determinatio.	8918800	Efficient transcription from the human immunodeficiency virus(HIV) promoter depends on binding of the viral regulatory protein Tat to a cis-acting RNA regulatory element, TAR. Tat binds at a trinucleotide bulge located near the apex of the TAR stem-loop structure.
VVID00010975	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	-	-	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Nuclear magnetic resonance (NMR) spectroscopy.	1621097	The messenger RNAs of human immunodeficiency virus-1 (HIV-1) have an RNA hairpin structure, TAR, at their 5' ends that contains a six-nucleotide loop and a three-nucleotide bulge. The conformations of TAR RNA and of TAR with an arginine analog specifically bound at the binding site for the viral protein, Tat, were characterized by nuclear magnetic resonance(NMR) spectroscopy.
VVID00010976	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	T-cell lines (CEM, Jurkat, Molt4, Hut78, H9), HIV-1 infected T-cell lines (ACH2, J1.1)	-	Virus	Protein	Dicer	#	Downregulation	biotin-labeled TAR.	17663774	This shows that Dicer, expressed in CD4+ T-cells and HIV-1 infected T-cells, binds to the HIV-1 TAR structure and implies that the TAR element present in HIV-1 .
VVID00010977	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	T-cell lines (CEM, Jurkat, Molt4, Hut78, H9), HIV-1 infected T-cell lines (ACH2, J1.1)	-	Virus	Protein	LTR	#	Downregulation	RNase protection assay, Luciferase assays, Chromatin immunoprecipitation, Western blot.	17663774	We tested the ability of TAR derived miRNA to downregulate viral gene expression through the use of a plasmid containing the luciferase gene under control of the HIV-1 LTR.
VVID00010978	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	T-cell lines (CEM, Jurkat, Molt4, Hut78, H9), HIV-1 infected T-cell lines (ACH2, J1.1)	-	Virus	Protein	RISC	#	Downregulation	Biotin labeled, Dicer cleavage, RNase protection assay, Chromatin immunoprecipitation, competition assays, Luciferase assays, Western blot.	17663774	A miRNA generated from one side of the HIV TAR stemloop, such as the small RNA detected by the TAR 5' probe in our RPA assay, will possess significant similarity to the complementary strand of the TAR element. Production of this viral miRNA may down regulate viral gene expression by targeting the RISC or RITS complexes to viral RNA transcripts that contain the TAR element.
VVID00010979	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR(TAR)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	T-cell lines (CEM, Jurkat, Molt4, Hut78, H9), HIV-1 infected T-cell lines (ACH2, J1.1)	-	Virus	Protein	RITS	#	Downregulation	Biotin labeled, Dicer cleavage, RNase protection assay, Chromatin immunoprecipitation, competition assays, Luciferase assays, Western blot.	17663774	A miRNA generated from one side of the HIV TAR stemloop, such as the small RNA detected by the TAR 5' probe in our RPA assay, will possess significant similarity to the complementary strand of the TAR element. Production of this viral miRNA may down regulate viral gene expression by targeting the RISC or RITS complexes to viral RNA transcripts that contain the TAR element.
VVID00010980	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR-3p	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	-	-	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Electrophoretic mobility shift assay, Cell culture and luciferase activity assays, Northern blot analyses, RNase protection assays, Production of virus stocks and infection, Primer extension experiments, In vitro Dicer RNase assays.	18299284	HIV-1 TAR element is the target of the viral transactivating Tat protein, which is expressed during the course of HIV-1 infection and known to act at the RNA level to enhance viral gene expression by >100-fold (29). We thus examined whether Tat could shield TAR RNA and prevent its processing by Dicer.
VVID00010981	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hiv1-mir-TAR-5p	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0007073	-	-	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Electrophoretic mobility shift assay, Cell culture and luciferase activity assays, Northern blot analyses, RNase protection assays, Production of virus stocks and infection, Primer extension experiments, In vitro Dicer RNase assays.	18299284	HIV-1 TAR element is the target of the viral transactivating Tat protein, which is expressed during the course of HIV-1 infection and known to act at the RNA level to enhance viral gene expression by >100-fold (29). We thus examined whether Tat could shield TAR RNA and prevent its processing by Dicer.
VVID00010982	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hsv1-mir-LAT	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006105	MRC5 and HEK293T cells	-	Virus	mRNA	ICP0	#	-	Predicted.	18378902	Table2 Whole genome ranks for predicted miRNA-IE target pairs in four herpesviruse.HSV-1 miR-LAT likely targets ICP0.
VVID00010983	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Virus	miRNA	hsv1-mir-LAT(miR-LAT)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006105	MRC5 and HEK293T cells	-	Virus	mRNA	Gamma34.5(the HSV-1 neurovirulence factor )	#	-	Predicted.	18378902	The HSV-1 neurovirulence factor Gamma34.5, whose RNA contains an octamer seed binding site for miR-LAT.
VVID00010984	Human papillomavirus(HPV)	Homo sapiens	Virus	ShRNA	HPV16 E6A	#	SiHa cells	-	Virus	mRNA	E6	http://www.ncbi.nlm.nih.gov/gene/13887830	Downregulation	Reporter assays,RIP-Chip,Immunoprecipitation.	16681752	HPV16E6A shRNA was found to be the most efficient in our study, which caused the reduction of HPV16 E6 mRNA to 10% in  SiHa cells but did not reduce HPV18 E6 mRNA expression in HeLa cells.
VVID00010985	John Cunningham virus(JCV)	Homo sapiens	Virus	miRNA	jcv-mir-J1(miR-J1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0009980	-	-	Virus	Protein	LT-Ag	#	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, assays of acute infection and CTL reactivity in vivo, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00010986	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	LncRNA	PAN	#	-	Upregulation	Virus	Protein	ORF57	http://www.ncbi.nlm.nih.gov/gene/4961525	-	Luciferase assays.	23077296	We report that PABPC1 forms a complex with the Kaposi's sarcoma-associated herpesvirus(KSHV) ORF57 protein, which allows ORF57 to interact with a 9-nucleotide(nt) core element of KSHV polyadenylated nuclear(PAN) RNA, a viral long noncoding RNA(LncRNA), and increase PAN stability.these data indicate that PABPC1 is an important cellular target of viral ORF57 to directly upregulate PAN accumulation during viral lytic infection, and the ability of host PABPC1 to disrupt ORF57 expression is a strategic host counterbalancing mechanism.
VVID00010987	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	LncRNA	PAN	#	293L cells	-	Virus	Protein	ORF50(K-Rta)	http://www.ncbi.nlm.nih.gov/gene/4961526	Upregulation	Chromatin Immunoprecipitation (ChIP), Real-time PCR, RNA Cross-Linking Immunoprecipitation (RNA CLIP), Chromatin Isolation by RNA Purification (ChIRP), RNA chromatin immunoprecipitation assays, Southern blot analysis.	22589717	Expression of PAN RNA intrans in BAC36CRDPAN containing cells resulted in an increase in K-Rta expression, however K-Rta over expression failed to rescue BAC36CRDPAN, suggesting that PAN RNA plays a wider role in virus replication. To investigate the role of PAN RNA in the activation of K-Rta expression, we demonstrate that PAN RNA physically interacts with the ORF50 promoter. .
VVID00010988	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-5(miR-K12-5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	-	-	Virus	Protein	ORF50	http://www.ncbi.nlm.nih.gov/gene/4961526	Downregulation	ChIP and KSHV genome array, Quantitative RT-PCR, MeDIP, Luciferase assay.	20071580	However, BAC36 miR consistently expressed elevated levels of viral lytic genes, including the immediate-early transcriptional activator Rta (ORF50). At least one KSHV microRNA (miR-K12-5) was capable of suppressing ORF50 mRNA, but poor seed sequence alignments suggest that these targets may be indirect.
VVID00010989	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-6-3p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	MRC5 and HEK293T cells	-	Virus	mRNA	Zta	#	-	Predicted.	18378902	KSHV(gamma-herpesvirus) Rta(ORF 50) and Zta(ORF K8) are homologues of EBV BRLF1 and BZLF1, respectively, although functionally BZLF1 seems to correspond more to the Rta. The 3' UTR shared by Zta and Rta is likely targeted by the KSHV miR-K10-6-3p.
VVID00010990	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-7-5p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015217	-	-	Virus	Protein	KSHV ORF50	http://www.ncbi.nlm.nih.gov/gene/4961526	Downregulation	RNA extraction and quantitative real-time PCR, Western blot analysis, Dual-luciferase reporter assay, PCR analysis of progeny virus.	21283761	miR-K12-7-5p Encoded by Kaposi's Sarcoma-Associated Herpesvirus Stabilizes the Latent State by Targeting Viral ORF50/RTA .The inhibition of RTA expression by miR-K12-7 was further confirmed in the latently KSHV-infected 293/Bac36 cell line through transient transfection of miR-K12-7 expression plasmid or specific inhibitor of miR-K12-7-5p, respectively. The transient transfection of miR-K12-7 into 293/Bac36 cells reduced RTA expression and the expression of the downstream early genes regulated by RTA, and also the production of progeny virus was significantly reduced after treatment with chemical inducers.
VVID00010991	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-7-5p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015217	-	-	Virus	Protein	RTA	http://www.ncbi.nlm.nih.gov/gene/4961526	Downregulation	RNA extraction and quantitative real-time PCR, Western blot analysis, Dual-luciferase reporter assay, PCR analysis of progeny virus.	21283761	Among these miRNAs, we report here that miR-K12-7 directly targets the replication and transcription activator (RTA) encoded by open reading frame 50. We found that miR-K12-7 targeted the RTA 3' untranslated region (RTA3'UTR) in a seed sequence-dependent manner.
VVID00010992	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-7-5p(miR-K12-7-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0015217	-	-	Virus	Protein	ORF50(ORF50/RTA)	http://www.ncbi.nlm.nih.gov/gene/4961526	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VVID00010993	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K12-9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	-	-	Virus	Protein	ORF50(ORF50/RTA)	http://www.ncbi.nlm.nih.gov/gene/4961526	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VVID00010994	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K12-9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	Lymphocytes	-	Virus	Protein	ORF50	http://www.ncbi.nlm.nih.gov/gene/4961526	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	K12-4-5p targeting retinoblastoma(Rb)-like protein 2(Rbl2) and miR-K12-5 and -9*suppressing ORF50 Mrna.Together, these  data  suggest  mutiple  roles  for  these  viral  microRNAs  in  pathogenesis  and  potentially  tumorigenesis in the KSHV-infected host. .
VVID00010995	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-miR-K12-9-5p(miR-K9*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002184	-	-	Virus	Protein	RTA	#	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, assays of acute infection and CTL reactivity in vivo, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00010996	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002475	-	-	Virus	mRNA	NFKBIA	http://www.ncbi.nlm.nih.gov/gene/4792	-	Experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs., crosslinking and immunoprecipitation (CLIP) assay.	23170179	Each method has inherent advantages and limitations, but the combination of these approaches have been successful in identifying many miRNA targets(Table 1).Table1 List of experimentally validated cellular targets of KSHV- and EBV- encoded miRNAs. The normal cellular functions of these proteins and the effect of their knockdown during viral infection are also listed. The targets that are underlined are repressed by both KSHV - and EBV- encoded miRNA.ND- No data.
VVID00010997	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	Lymphocytes	-	Virus	Protein	ORF50	http://www.ncbi.nlm.nih.gov/gene/4961526	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	K12-4-5p targeting retinoblastoma(Rb)-like protein 2(Rbl2) and miR-K12-5 and -9*suppressing ORF50 Mrna.Together, these  data  suggest  mutiple  roles  for  these  viral  microRNAs  in  pathogenesis  and  potentially  tumorigenesis in the KSHV-infected host. .
VVID00010998	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K12-5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	-	-	Virus	Protein	ORF50(ORF50/RTA)	http://www.ncbi.nlm.nih.gov/gene/4961526	Downregulation	Reporter Assay,Luciferase Reporter,Ectopic Reporter.	21616184	Currently, the validated targets of KSHV miRNAs (Table 1) represent a collection of genes identified by unbiased methods or chosen by previously identified functions. Table 1 KSHVmiRNA validated targets. All targets have been validated using ectopic expression of miRNAs to demonstrate that a luciferase reporter or ectopic reporter are repressed. Additional validations include(1) exogenous reporters have been mutated to disrupt targeting by a ectopic miRNA,(2) ectopic miRNA suppresses endogenous target mRNA and/or protein levels,(3) de novo infection with KSHV represses endogenous target expression,(4) miRNA inhibitors and/or mutant virus display derepression of endogenous target mRNA and/or protein levels, and(5) repression of miRNA target is observed in KSHV clinical samples.
VVID00010999	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	-	-	Virus	Protein	ORF56	http://www.ncbi.nlm.nih.gov/gene/4961445	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VVID00011000	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	-	-	Virus	Protein	ORF56	http://www.ncbi.nlm.nih.gov/gene/4961445	Downregulation	Bioinformatic miRNA Target Predictions and Seed Match Analyses, and Western Blotting, Dual Luciferase Reporter Assays, Whole-Cell Extracts, Plasmid Constructions, Immunoprecipitation.	21402938	miR-K5 and miR-K6-3p target ORF56 3'UTR.The phenotype of the mutation in Exon 1 not only indicates that this site is recognized by miR-K5, but also suggests it is the only functional recognition site for this miRNA in the ORF56 3'UTR.KSHV miR-K5 and miR-K6-3p down-regulate the expression of Renilla LUC reporter fused to genomic sequence of ORF56 3'UTR. HEK293 cells were cotransfected with each reporter construct (ORF56 3'UTR and VEC) along with a negative control miRNA (Ctl) or each of the indicated 20 KSHV miRNAs.Transfection conditions,.
VVID00011001	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	-	-	Virus	Protein	ORF57	http://www.ncbi.nlm.nih.gov/gene/4961525	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VVID00011002	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	-	-	Virus	Protein	ORF57	http://www.ncbi.nlm.nih.gov/gene/4961525	Downregulation	Bioinformatic miRNA Target Predictions and Seed Match Analyses, and Western Blotting, Dual Luciferase Reporter Assays, Whole-Cell Extracts, Plasmid Constructions, Immunoprecipitation.	21402938	Examination of the sequence of the ORF56/primase 3'UTR with several miRNA target prediction programs suggested two likely targets for miR-K5jone in Exon 1 of the ORF57 gene, and one in Exon 2 of the gene. The sequences of these target sites, and their predicted basepairing with miR-K5, are shown in Fig. 2B.
VVID00011003	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-5(miR-K5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002481	-	-	Virus	mRNA	ORF50(RTA)	http://www.ncbi.nlm.nih.gov/gene/4961526	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VVID00011004	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-6(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	-	-	Virus	Protein	ORF57	http://www.ncbi.nlm.nih.gov/gene/4961525	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VVID00011005	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-6-3p	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002480	MRC5 and HEK293T cells	-	Virus	mRNA	Rta	#	-	Predicted.	18378902	KSHV(gamma-herpesvirus) Rta(ORF 50) and Zta(ORF K8) are homologues of EBV BRLF1 and BZLF1, respectively, although functionally BZLF1 seems to correspond more to the Rta. The 3' UTR shared by Zta and Rta is likely targeted by the KSHV miR-K10-6-3p.
VVID00011006	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	-	-	Virus	Protein	ORF56	http://www.ncbi.nlm.nih.gov/gene/4961445	-	-	22100165	Our dataset also confirmed 12 out of 29 validated KSHV miRNA targets with expression in our dataset(>40%). Confirmed interactions include those with BACH1, FOS, CDKN1A(p21), TNFRSF12A(TWEAKR), RAD21 and RBL2 mRNAs, whose regulation had previously been validated at the level of protein expression. A list summarizing the recovery of previously published targets of the KSHV and EBV miRNAs is presented in Table S9. NIHMS333942-supplement-01  Table S9 Recovery of previously published targets for KSHV or EBV miRNAs.
VVID00011007	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	-	-	Virus	Protein	ORF56	http://www.ncbi.nlm.nih.gov/gene/4961445	Downregulation	Bioinformatic miRNA Target Predictions and Seed Match Analyses, and Western Blotting, Dual Luciferase Reporter Assays, Whole-Cell Extracts, Plasmid Constructions, Immunoprecipitation.	21402938	miR-K5 and miR-K6-3p target ORF56 3'UTR.The phenotype of the mutation in Exon 1 not only indicates that this site is recognized by miR-K5, but also suggests it is the only functional recognition site for this miRNA in the ORF56 3'UTR.KSHV miR-K5 and miR-K6-3p down-regulate the expression of Renilla LUC reporter fused to genomic sequence of ORF56 3'UTR. HEK293 cells were cotransfected with each reporter construct (ORF56 3'UTR and VEC) along with a negative control miRNA (Ctl) or each of the indicated 20 KSHV miRNAs.Transfection conditions,.
VVID00011008	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-6-3p(miR-K6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0002189	-	-	Virus	Protein	ORF57	http://www.ncbi.nlm.nih.gov/gene/4961525	Downregulation	Bioinformatic miRNA Target Predictions and Seed Match Analyses, and Western Blotting, Dual Luciferase Reporter Assays, Whole-Cell Extracts, Plasmid Constructions, Immunoprecipitation.	21402938	We took a similar approach to map the target site(s) for miR-K6-3p in the ORF56 3'UTR. The locations of the top two target sites predicted computationally are shown in Fig. 2A. One site (termed Site 3) resides within the intron of the ORF57 gene, while the other (Site 4) maps to Exon 2 of ORF57. Fig. 2C shows that only the mutation in Site 3 abolishes miR-K6-3p action, indicating the target site for this miRNA is in the intron of ORF57.
VVID00011009	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Virus	miRNA	kshv-mir-K12-9(miR-K9)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002477	-	-	Virus	mRNA	ORF50(RTA)	http://www.ncbi.nlm.nih.gov/gene/4961526	-	Genome wide analysis, CTL assays, Bioinformatic analysis.	20580307	From the targets identified to date (Table 1, Figure 1) it is apparent that viral miRNAs play an important role in immune evasion by inhibiting immune surveillance and extending the life of the infected host cell. Table 1 Immunomodulatory viral miRNAs.
VVID00011010	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-mir-M4(miR-M4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005096	-	-	Virus	Protein	UL28	http://www.ncbi.nlm.nih.gov/gene/2930809	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, assays of acute infection and CTL reactivity in vivo, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00011011	Marek's disease virus 1(MDV-1)	Gallus gallus	Virus	miRNA	mdv1-mir-M4(miR-M4)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005096	-	-	Virus	Protein	UL32	#	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, assays of acute infection and CTL reactivity in vivo, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00011012	Polyoma virus(PyV)	Homo sapiens	Virus	miRNA	miR-P1	#	-	-	Virus	Protein	LT-Ag	#	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, assays of acute infection and CTL reactivity in vivo, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00011013	Rhesus lymphocryptovirus(rLCV)	Macaca mulatta	Virus	miRNA	rlcv-miR-rL1-6-3p(miR-rL1-6-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003435	rLCV-infected rhesus macaquerLCLs	-	Virus	Protein	BHRF1	http://www.ncbi.nlm.nih.gov/gene/3783706	Downregulation	Western blot analysis, PAR-CLIP, qRT-PCR for RISC-associated BHRF1 mRNAs,Luciferase reporter assays.	24257599	In addition to miR-BART10, we observed significant inhibition of the EBV BHRF1 3'UTR reporter in the presence of miR-BART1. miR-BART1-3p and its rLCV homolog, miR-rL1-6-3p, have seed matches (nt 2 to 8) to the EBV and rLCV BHRF1 3'UTRs, al-though the positions of the seed match sites and the miRNA inhibition are not conserved. .
VVID00011014	Rhesus lymphocryptovirus(rLCV)	Macaca mulatta	Virus	miRNA	rlcv-miR-rL1-8-5p(miR-rL1-8-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003437	rLCV-infected rhesus macaquerLCLs	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	PAR-CLIP.	24257599	Intriguingly, seed matches for miR-rL1-8-5p, rL1-23, rL1-16, and rL1-28 were present in the herpesvirus papio LMP1 3'UTR sequence (not shown).
VVID00011015	Rhesus lymphocryptovirus(rLCV)	Macaca mulatta	Virus	miRNA	rlcv-mir-rL1-16(miR-rL1-16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003752	rLCV-infected rhesus macaquerLCLs	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	PAR-CLIP.	24257599	Intriguingly, seed matches for miR-rL1-8-5p, rL1-23, rL1-16, and rL1-28 were present in the herpesvirus papio LMP1 3'UTR sequence (not shown).
VVID00011016	Rhesus lymphocryptovirus(rLCV)	Macaca mulatta	Virus	miRNA	rlcv-mir-rL1-16(miR-rL1-16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003752	rLCV-infected rhesus macaquerLCLs	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	luciferase reporter assays, photoactivatable cross-linking and immunoprecipitation(PAR-CLIP), and deep sequencing and qRT-PCR.	24257599	Using luciferase reporter assays and by performing PAR-CLIP analysis of LCLs latently infected with EBV or rLCV, we show here that five EBV BART miRNAs (miR-BART3, miR-BART5, miR-BART16, miRBART17, and miR-BART20) and at least four rLCV BART miRNA homologs (miR-rL1-5, miR-rL1-8, miR-rL1-16, and miR-rL1-23) target LMP1 3'UTRs.
VVID00011017	Rhesus lymphocryptovirus(rLCV)	Macaca mulatta	Virus	miRNA	rlcv-mir-rL1-23(miR-rL1-23)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0013282	rLCV-infected rhesus macaquerLCLs	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	PAR-CLIP.	24257599	Intriguingly, seed matches for miR-rL1-8-5p, rL1-23, rL1-16, and rL1-28 were present in the herpesvirus papio LMP1 3'UTR sequence (not shown).
VVID00011018	Rhesus lymphocryptovirus(rLCV)	Macaca mulatta	Virus	miRNA	rlcv-mir-rL1-23(miR-rL1-23)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0013282	rLCV-infected rhesus macaquerLCLs	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	luciferase reporter assays, photoactivatable cross-linking and immunoprecipitation(PAR-CLIP), and deep sequencing and qRT-PCR.	24257599	Using luciferase reporter assays and by performing PAR-CLIP analysis of LCLs latently infected with EBV or rLCV, we show here that five EBV BART miRNAs (miR-BART3, miR-BART5, miR-BART16, miRBART17, and miR-BART20) and at least four rLCV BART miRNA homologs (miR-rL1-5, miR-rL1-8, miR-rL1-16, and miR-rL1-23) target LMP1 3'UTRs.
VVID00011019	Rhesus lymphocryptovirus(rLCV)	Macaca mulatta	Virus	miRNA	rlcv-mir-rL1-28(miR-rL1-28) 	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0013287	rLCV-infected rhesus macaquerLCLs	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	PAR-CLIP.	24257599	Intriguingly, seed matches for miR-rL1-8-5p, rL1-23, rL1-16, and rL1-28 were present in the herpesvirus papio LMP1 3'UTR sequence (not shown).
VVID00011020	Rhesus lymphocryptovirus(rLCV)	Macaca mulatta	Virus	miRNA	rlcv-mir-rL1-5(miR-rL1-5)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003741	rLCV-infected rhesus macaquerLCLs	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	luciferase reporter assays, photoactivatable cross-linking and immunoprecipitation(PAR-CLIP), and deep sequencing and qRT-PCR.	24257599	Using luciferase reporter assays and by performing PAR-CLIP analysis of LCLs latently infected with EBV or rLCV, we show here that five EBV BART miRNAs (miR-BART3, miR-BART5, miR-BART16, miRBART17, and miR-BART20) and at least four rLCV BART miRNA homologs (miR-rL1-5, miR-rL1-8, miR-rL1-16, and miR-rL1-23) target LMP1 3'UTRs.
VVID00011021	Rhesus lymphocryptovirus(rLCV)	Macaca mulatta	Virus	miRNA	rlcv-mir-rL1-8(miR-rL1-8)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003744	rLCV-infected rhesus macaquerLCLs	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	luciferase reporter assays, photoactivatable cross-linking and immunoprecipitation(PAR-CLIP), and deep sequencing and qRT-PCR.	24257599	Using luciferase reporter assays and by performing PAR-CLIP analysis of LCLs latently infected with EBV or rLCV, we show here that five EBV BART miRNAs (miR-BART3, miR-BART5, miR-BART16, miRBART17, and miR-BART20) and at least four rLCV BART miRNA homologs (miR-rL1-5, miR-rL1-8, miR-rL1-16, and miR-rL1-23) target LMP1 3'UTRs.
VVID00011022	Simian virus 40(SV40)	Callithrix jacchus	Virus	miRNA	sv40-mir-S1(miR-S1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003689	-	-	Virus	mRNA	SV40gp6(T antigen)	http://www.ncbi.nlm.nih.gov/gene/1489531	Downregulation	-	19158788	These SV40 miRNAs, which show perfect complementarity to the T antigen mRNAs, induce their cleavage and degradation and reduce T antigen expression late in the SV40 life cycle.
VVID00011023	Simian virus 40(SV40)	Homo sapiens	Virus	miRNA	sv40-miR-S1-5p(miR-S1-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003344	HeLa cells	-	Virus	Protein	SV40gp6(T antigen)	http://www.ncbi.nlm.nih.gov/gene/1489531	Downregulation	Fluorescence reporter assays.	22558366	Using the new reporter system, it was found that sv40-mir-S1-5p and hsa-miR423-5p downregulate the expression of common artificial target mRNAs and some predicted biological targets of hsa-miR423-5p, demonstrating that they are functional orthologs.These results demonstrated that SV40-encoded miRNA miR-S1-5p should act as a functional ortholog of the human-derived miRNA miR423-5p. SV40-encoded miR-S1-5p was reported to downregulate the expression of viral T antigen without reducing the yield of infectious virus,thus reducing host cytotoxic T lymphocyte (CTL) susceptibility and local cytokine release. .
VVID00011024	Simian virus 40(SV40)	Saimiri boliviensis	Virus	miRNA	sv40-mir-S1(miR-S1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003689	-	-	Virus	Protein	LT-Ag	#	Downregulation	QRT-PCR, standard assays of laboratory infection, combined with cDNA microarray analysis, computational analysis, high-throughput analysis methods, assays of acute infection and CTL reactivity in vivo, reporter assays, luciferase assays.	21277611	An overview of known targets of cellular or viral targets is given in tables 2 and 3.Table 2 Cellular Targets of viral miRNAs.Table 3 Viral Targets of viral miRNAs.
VVID00011025	White spot syndrome virus(WSSV)	Shrimp	Virus	miRNA	WSSV-miR-66	#	-	-	Virus	Protein	Swssvgp094(wsv094)	http://www.ncbi.nlm.nih.gov/gene/926782	-	-	24198431	It was revealed that the WSSV wsv094 and wsv177 genes were the targets of WSSV-miR-66 and that the wsv248 and wsv309 genes were the targets of WSSV-miR-68. The data demonstrate that the four target genes play negative roles in the WSSV infection. The targeting of the four virus genes by WSSV-miR-66 and WSSV-miR-68 led to the promotion of virus infection. .
VVID00011026	White spot syndrome virus(WSSV)	Shrimp	Virus	miRNA	WSSV-miR-66	#	-	-	Virus	Protein	Swssvgp177(wsv177)	http://www.ncbi.nlm.nih.gov/gene/926942	-	-	24198431	It was revealed that the WSSV wsv094 and wsv177 genes were the targets of WSSV-miR-66 and that the wsv248 and wsv309 genes were the targets of WSSV-miR-68. The data demonstrate that the four target genes play negative roles in the WSSV infection. The targeting of the four virus genes by WSSV-miR-66 and WSSV-miR-68 led to the promotion of virus infection. .
VVID00011027	White spot syndrome virus(WSSV)	Shrimp	Virus	miRNA	WSSV-miR-68	#	-	-	Virus	Protein	Swssvgp248(wsv248)	http://www.ncbi.nlm.nih.gov/gene/926945	-	-	24198431	It was revealed that the WSSV wsv094 and wsv177 genes were the targets of WSSV-miR-66 and that the wsv248 and wsv309 genes were the targets of WSSV-miR-68. The data demonstrate that the four target genes play negative roles in the WSSV infection. The targeting of the four virus genes by WSSV-miR-66 and WSSV-miR-68 led to the promotion of virus infection. .
VVID00011028	White spot syndrome virus(WSSV)	Shrimp	Virus	miRNA	WSSV-miR-68	#	-	-	Virus	Protein	Swssvgp309(wsv309)	http://www.ncbi.nlm.nih.gov/gene/927121	-	-	24198431	It was revealed that the WSSV wsv094 and wsv177 genes were the targets of WSSV-miR-66 and that the wsv248 and wsv309 genes were the targets of WSSV-miR-68. The data demonstrate that the four target genes play negative roles in the WSSV infection. The targeting of the four virus genes by WSSV-miR-66 and WSSV-miR-68 led to the promotion of virus infection. .
HHID00011029	Andes hantavirus(ANDV)	Homo sapiens	Host	miRNA	hsa-mir-126	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000471	Endothelial cells	Upregulation	Host	Protein	PIK3R2	http://www.ncbi.nlm.nih.gov/gene/5296	Downregulation	Immunoperoxidase staining of hantavirus-infected cells, cDNA synthesis, EC permeability assay, siRNA transfection, Western blot analysis, RT-PCR arrays, miRNA array real-time PCR, qRT-PCR of cellular mRNAs, MicroRNA and total RNA purification.	20844033	We further analyzed changes in miR-126, an EC-specific miRNA that regulates vascular integrity by suppressing SPRED1 and PIK3R2 mRNAs.The level of miR-126, which has a known function in regulating vascular permeability, increased approximately 2-fold following ANDV infection.
HHID00011030	Andes hantavirus(ANDV)	Homo sapiens	Host	miRNA	hsa-mir-126	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000471	Endothelial cells	Upregulation	Host	Protein	SPRED1	http://www.ncbi.nlm.nih.gov/gene/161742	Downregulation	Immunoperoxidase staining of hantavirus-infected cells, cDNA synthesis, EC permeability assay, siRNA transfection, Western blot analysis, RT-PCR arrays, miRNA array real-time PCR, qRT-PCR of cellular mRNAs, MicroRNA and total RNA purification.	20844033	We further analyzed changes in miR-126, an EC-specific miRNA that regulates vascular integrity by suppressing SPRED1 and PIK3R2 mRNAs.The level of miR-126, which has a known function in regulating vascular permeability, increased approximately 2-fold following ANDV infection.
HHID00011031	Avian leukosis virus(ALV)	Gallus gallus	Host	miRNA	gga-mir-26a(gga-miR-26a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001187	Chicken lymphoma cells	Downregulation	Host	Protein	IL-2	http://www.ncbi.nlm.nih.gov/gene/373958	-	Analysis of miRNA expression, Analysis of IL-2 expression, reporter and biochemical assays.	20441582	The expression levels of gga-miR-26a in chicken lymphoma cells transformed by 3 distinct avian oncogenic viruses, viz Marek's disease virus (MDV), avian leukosis virus (ALV) and Reticuloendotheliosis virus (REV) were consistently downregulated compared to the levels in the normal lymphocytes. We demonstrate the additional role of this miRNA in directly targeting chicken IL-2 through reporter and biochemical assays. The downregulation of miR-26a can relieve the suppressive effect of this miRNA on IL-2 expression.
HHID00011032	Coxsackievirus B3(CVB3)	Mus musculus	Host	miRNA	mmu-mir-203(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000246	CVB3-infected Mus musculus hearts	Upregulation	Host	Protein	Prkca	http://www.ncbi.nlm.nih.gov/gene/18750	Upregulation	microarray analysis.	22842794	To identify miRNAs involved in CVB3 pathogenesis, we performed microarray analysis of miRNAs using CVB3-infected murine hearts and identified miR-203 as one of the most upregulated candidates. We found that miR-203 upregulation is through the activation of protein kinase C/transcription factor AP-1 pathway.
HHID00011033	Coxsackievirus B3(CVB3)	Mus musculus	Host	miRNA	mmu-mir-203(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000246	CVB3-infected Mus musculus hearts	Upregulation	Host	Protein	Prkcb	http://www.ncbi.nlm.nih.gov/gene/18751	Upregulation	microarray analysis.	22842794	To identify miRNAs involved in CVB3 pathogenesis, we performed microarray analysis of miRNAs using CVB3-infected murine hearts and identified miR-203 as one of the most upregulated candidates. We found that miR-203 upregulation is through the activation of protein kinase C/transcription factor AP-1 pathway.
HHID00011034	Coxsackievirus B3(CVB3)	Mus musculus	Host	miRNA	mmu-mir-203(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000246	CVB3-infected Mus musculus hearts	Upregulation	Host	Protein	Prkcd	http://www.ncbi.nlm.nih.gov/gene/18753	Upregulation	microarray analysis.	22842794	To identify miRNAs involved in CVB3 pathogenesis, we performed microarray analysis of miRNAs using CVB3-infected murine hearts and identified miR-203 as one of the most upregulated candidates. We found that miR-203 upregulation is through the activation of protein kinase C/transcription factor AP-1 pathway.
HHID00011035	Coxsackievirus B3(CVB3)	Mus musculus	Host	miRNA	mmu-mir-203(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000246	CVB3-infected Mus musculus hearts	Upregulation	Host	Protein	Prkce	http://www.ncbi.nlm.nih.gov/gene/18754	Upregulation	microarray analysis.	22842794	To identify miRNAs involved in CVB3 pathogenesis, we performed microarray analysis of miRNAs using CVB3-infected murine hearts and identified miR-203 as one of the most upregulated candidates. We found that miR-203 upregulation is through the activation of protein kinase C/transcription factor AP-1 pathway.
HHID00011036	Coxsackievirus B3(CVB3)	Mus musculus	Host	miRNA	mmu-mir-203(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000246	CVB3-infected Mus musculus hearts	Upregulation	Host	Protein	Prkcg	http://www.ncbi.nlm.nih.gov/gene/18752	Upregulation	microarray analysis.	22842794	To identify miRNAs involved in CVB3 pathogenesis, we performed microarray analysis of miRNAs using CVB3-infected murine hearts and identified miR-203 as one of the most upregulated candidates. We found that miR-203 upregulation is through the activation of protein kinase C/transcription factor AP-1 pathway.
HHID00011037	Coxsackievirus B3(CVB3)	Mus musculus	Host	miRNA	mmu-mir-203(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000246	CVB3-infected Mus musculus hearts	Upregulation	Host	Protein	Prkch	http://www.ncbi.nlm.nih.gov/gene/18755	Upregulation	microarray analysis.	22842794	To identify miRNAs involved in CVB3 pathogenesis, we performed microarray analysis of miRNAs using CVB3-infected murine hearts and identified miR-203 as one of the most upregulated candidates. We found that miR-203 upregulation is through the activation of protein kinase C/transcription factor AP-1 pathway.
HHID00011038	Coxsackievirus B3(CVB3)	Mus musculus	Host	miRNA	mmu-mir-203(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000246	CVB3-infected Mus musculus hearts	Upregulation	Host	Protein	Prkci	http://www.ncbi.nlm.nih.gov/gene/18759	Upregulation	microarray analysis.	22842794	To identify miRNAs involved in CVB3 pathogenesis, we performed microarray analysis of miRNAs using CVB3-infected murine hearts and identified miR-203 as one of the most upregulated candidates. We found that miR-203 upregulation is through the activation of protein kinase C/transcription factor AP-1 pathway.
HHID00011039	Coxsackievirus B3(CVB3)	Mus musculus	Host	miRNA	mmu-mir-203(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000246	CVB3-infected Mus musculus hearts	Upregulation	Host	Protein	Prkcq	http://www.ncbi.nlm.nih.gov/gene/18761	Upregulation	microarray analysis.	22842794	To identify miRNAs involved in CVB3 pathogenesis, we performed microarray analysis of miRNAs using CVB3-infected murine hearts and identified miR-203 as one of the most upregulated candidates. We found that miR-203 upregulation is through the activation of protein kinase C/transcription factor AP-1 pathway.
HHID00011040	Coxsackievirus B3(CVB3)	Mus musculus	Host	miRNA	mmu-mir-203(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000246	CVB3-infected Mus musculus hearts	Upregulation	Host	Protein	Prkcz	http://www.ncbi.nlm.nih.gov/gene/18762	Upregulation	microarray analysis.	22842794	To identify miRNAs involved in CVB3 pathogenesis, we performed microarray analysis of miRNAs using CVB3-infected murine hearts and identified miR-203 as one of the most upregulated candidates. We found that miR-203 upregulation is through the activation of protein kinase C/transcription factor AP-1 pathway.
HHID00011041	Coxsackievirus B3(CVB3)	Mus musculus	Host	miRNA	mmu-mir-203(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000246	Hearts	Upregulation	Host	Protein	Zfp148	http://www.ncbi.nlm.nih.gov/gene/22661	Downregulation	Western blot analysis, Construction of luciferase reporter plasmids and its mutants, Quantitative real-time RT-PCR, Cell culture transfection, H&E staining and echocardiography, Luciferase reporter analysis, Viral plaque assay, Live-cell confocal imaging, Statistical analysis, Cell viability assay, MicroRNA microarray.	22842794	MicroRNA-203 enhances coxsackievirus B3 replication through targeting zinc finger protein-148. We further identified zinc finger protein-148(ZFP-148), a transcription factor, as a novel target of miR-203.
HHID00011042	Coxsackievirus B3(CVB3)	Mus musculus	Host	miRNA	mmu-mir-21a(miR-21)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000569	Cardiovascular	Downregulation	Host	Protein	PDCD4	http://www.ncbi.nlm.nih.gov/gene/18569	Downregulation	Real-time PCR.	23544605	Further study showed that miR-21 could protect myocardial apoptosis by specifically inhibiting its target programmed cell death 4(PDCD4) expression.Myocardial microRNA expression changes in CVB3-infected mice were analyzed by real-time PCR and miR-21 was found to be the miRNA whose expression was significantly reduced. miR-21 administration efficiently alleviated CVB3-induced myocarditis by repressing PDCD4-mediated apoptosis.
HHID00011043	Cucumber mosaic virus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR164a(miR164)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0027570	-	-	Host	Protein	NAC1	http://www.ncbi.nlm.nih.gov/gene/543917	-	RT-PCR.	21590278	NAC1, HD-ZIP and TCP4, were up-regulated during the pathogenic processes after CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections. NAC1 is regulated by miR164, it has been reported that NAC1 controls lamina outgrowth on a grander scale than that of serrations [24]. Reduction of NAC gene function in a wide range of compound leaved plants reduces the number of leaflet and results in leaflet fusions as well as suppressing serrations [25, 26]. MiR165/166-regulated HD-ZIP is important for establishing the adaxial cell fate during leaf dorso-ventral patterning. MiR319-regulated TCP4 is also indispensable for proper leaf morphogenesis and leaf senescence [24, 27].
HHID00011044	Cucumber mosaic virus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR164b(miR164)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0027571	-	-	Host	Protein	NAC1	http://www.ncbi.nlm.nih.gov/gene/543917	-	RT-PCR.	21590278	NAC1, HD-ZIP and TCP4, were up-regulated during the pathogenic processes after CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections. NAC1 is regulated by miR164, it has been reported that NAC1 controls lamina outgrowth on a grander scale than that of serrations [24]. Reduction of NAC gene function in a wide range of compound leaved plants reduces the number of leaflet and results in leaflet fusions as well as suppressing serrations [25, 26]. MiR165/166-regulated HD-ZIP is important for establishing the adaxial cell fate during leaf dorso-ventral patterning. MiR319-regulated TCP4 is also indispensable for proper leaf morphogenesis and leaf senescence [24, 27].
HHID00011045	Cucumber mosaic virus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR166a(miR166)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0008358	-	-	Host	Protein	HD-ZIP	http://www.ncbi.nlm.nih.gov/gene/544105	-	RT-PCR.	21590278	NAC1, HD-ZIP and TCP4, were up-regulated during the pathogenic processes after CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections. NAC1 is regulated by miR164, it has been reported that NAC1 controls lamina outgrowth on a grander scale than that of serrations [24]. Reduction of NAC gene function in a wide range of compound leaved plants reduces the number of leaflet and results in leaflet fusions as well as suppressing serrations [25, 26]. MiR165/166-regulated HD-ZIP is important for establishing the adaxial cell fate during leaf dorso-ventral patterning. MiR319-regulated TCP4 is also indispensable for proper leaf morphogenesis and leaf senescence [24, 27].
HHID00011046	Cucumber mosaic virus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR166b(miR166)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0009972	-	-	Host	Protein	HD-ZIP	http://www.ncbi.nlm.nih.gov/gene/544105	-	RT-PCR.	21590278	NAC1, HD-ZIP and TCP4, were up-regulated during the pathogenic processes after CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections. NAC1 is regulated by miR164, it has been reported that NAC1 controls lamina outgrowth on a grander scale than that of serrations [24]. Reduction of NAC gene function in a wide range of compound leaved plants reduces the number of leaflet and results in leaflet fusions as well as suppressing serrations [25, 26]. MiR165/166-regulated HD-ZIP is important for establishing the adaxial cell fate during leaf dorso-ventral patterning. MiR319-regulated TCP4 is also indispensable for proper leaf morphogenesis and leaf senescence [24, 27].
HHID00011047	Cucumber mosaic virus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR166c(miR166)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0029105	-	-	Host	Protein	HD-ZIP	http://www.ncbi.nlm.nih.gov/gene/544105	-	RT-PCR.	21590278	NAC1, HD-ZIP and TCP4, were up-regulated during the pathogenic processes after CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections. NAC1 is regulated by miR164, it has been reported that NAC1 controls lamina outgrowth on a grander scale than that of serrations [24]. Reduction of NAC gene function in a wide range of compound leaved plants reduces the number of leaflet and results in leaflet fusions as well as suppressing serrations [25, 26]. MiR165/166-regulated HD-ZIP is important for establishing the adaxial cell fate during leaf dorso-ventral patterning. MiR319-regulated TCP4 is also indispensable for proper leaf morphogenesis and leaf senescence [24, 27].
HHID00011048	Cucumber mosaic virus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR319a(miR319)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0009978	-	-	Host	Protein	TCP4	http://www.ncbi.nlm.nih.gov/gene/100736453	-	RT-PCR.	21590278	NAC1, HD-ZIP and TCP4, were up-regulated during the pathogenic processes after CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections. NAC1 is regulated by miR164, it has been reported that NAC1 controls lamina outgrowth on a grander scale than that of serrations [24]. Reduction of NAC gene function in a wide range of compound leaved plants reduces the number of leaflet and results in leaflet fusions as well as suppressing serrations [25, 26]. MiR165/166-regulated HD-ZIP is important for establishing the adaxial cell fate during leaf dorso-ventral patterning. MiR319-regulated TCP4 is also indispensable for proper leaf morphogenesis and leaf senescence [24, 27].
HHID00011049	Cucumber mosaic virus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR319b(miR319)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0029098	-	-	Host	Protein	TCP4	http://www.ncbi.nlm.nih.gov/gene/100736453	-	RT-PCR.	21590278	NAC1, HD-ZIP and TCP4, were up-regulated during the pathogenic processes after CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections. NAC1 is regulated by miR164, it has been reported that NAC1 controls lamina outgrowth on a grander scale than that of serrations [24]. Reduction of NAC gene function in a wide range of compound leaved plants reduces the number of leaflet and results in leaflet fusions as well as suppressing serrations [25, 26]. MiR165/166-regulated HD-ZIP is important for establishing the adaxial cell fate during leaf dorso-ventral patterning. MiR319-regulated TCP4 is also indispensable for proper leaf morphogenesis and leaf senescence [24, 27].
HHID00011050	Cucumber mosaic virus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR319c(miR319)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0029099	-	-	Host	Protein	TCP4	http://www.ncbi.nlm.nih.gov/gene/100736453	-	RT-PCR.	21590278	NAC1, HD-ZIP and TCP4, were up-regulated during the pathogenic processes after CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections. NAC1 is regulated by miR164, it has been reported that NAC1 controls lamina outgrowth on a grander scale than that of serrations [24]. Reduction of NAC gene function in a wide range of compound leaved plants reduces the number of leaflet and results in leaflet fusions as well as suppressing serrations [25, 26]. MiR165/166-regulated HD-ZIP is important for establishing the adaxial cell fate during leaf dorso-ventral patterning. MiR319-regulated TCP4 is also indispensable for proper leaf morphogenesis and leaf senescence [24, 27].
HHID00011051	Cytomegalovirus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR156a(miR156)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0009971	-	-	Host	Protein	SPL	#	Upregulation	Microarray analysis, RT-PCR.	23277401	In open flower, AP2, NAC1, and SPL levels in CMV-Fny-satT1 infected plants were most apparently increased. The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011052	Cytomegalovirus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR156b(miR156)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0009971	-	-	Host	Protein	SPL	#	Upregulation	Microarray analysis, RT-PCR.	23277401	In open flower, AP2, NAC1, and SPL levels in CMV-Fny-satT1 infected plants were most apparently increased. The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011053	Cytomegalovirus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR156c(miR156)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0009973	-	-	Host	Protein	SPL	#	Upregulation	Microarray analysis, RT-PCR.	23277401	In open flower, AP2, NAC1, and SPL levels in CMV-Fny-satT1 infected plants were most apparently increased. The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011054	Cytomegalovirus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR156d(miR156)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0029109	-	-	Host	Protein	SPL	#	Upregulation	Microarray analysis, RT-PCR.	23277401	In open flower, AP2, NAC1, and SPL levels in CMV-Fny-satT1 infected plants were most apparently increased. The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011055	Cytomegalovirus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR156e(miR156)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0029110	-	-	Host	Protein	SPL	#	Upregulation	Microarray analysis, RT-PCR.	23277401	In open flower, AP2, NAC1, and SPL levels in CMV-Fny-satT1 infected plants were most apparently increased. The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011056	Cytomegalovirus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR159(miR159)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0009974	-	-	Host	Protein	MYB	http://www.ncbi.nlm.nih.gov/gene/100125893	Upregulation	Microarray analysis, RT-PCR.	23277401	AGO1 level in CMV-Fny and CMV-Fny-satT1 infections, ARF10, MYB and NAC1 levels in CMV-Fny2b infection, and AP2, MYB and NAC1 levels in TAV-Bj infection were approximately double those of mock-inoculated plants.The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011057	Cytomegalovirus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR164a(miR164)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0027570	-	-	Host	Protein	NAC1	http://www.ncbi.nlm.nih.gov/gene/543917	Upregulation	Microarray analysis, RT-PCR.	23277401	In the closed flower bud, the expression levels of NAC1 were most significantly increased in CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections (RQ >15).The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011058	Cytomegalovirus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR164b(miR164)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0027571	-	-	Host	Protein	NAC1	http://www.ncbi.nlm.nih.gov/gene/543917	Upregulation	Microarray analysis, RT-PCR.	23277401	In the closed flower bud, the expression levels of NAC1 were most significantly increased in CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections (RQ >15).The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011059	Cytomegalovirus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR168a(miR168)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0024352	-	-	Host	Protein	AGO1B(AGO1)	http://www.ncbi.nlm.nih.gov/gene/101255074	Upregulation	Microarray analysis, RT-PCR.	23277401	AGO1 level in CMV-Fny and CMV-Fny-satT1 infections, ARF10, MYB and NAC1 levels in CMV-Fny2b infection, and AP2, MYB and NAC1 levels in TAV-Bj infection were approximately double those of mock-inoculated plants.The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011060	Cytomegalovirus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR168b(miR168)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0024353	-	-	Host	Protein	AGO1B(AGO1)	http://www.ncbi.nlm.nih.gov/gene/101255074	Upregulation	Microarray analysis, RT-PCR.	23277401	AGO1 level in CMV-Fny and CMV-Fny-satT1 infections, ARF10, MYB and NAC1 levels in CMV-Fny2b infection, and AP2, MYB and NAC1 levels in TAV-Bj infection were approximately double those of mock-inoculated plants.The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011061	Cytomegalovirus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR172a(miR172)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0009976	-	-	Host	Protein	RAV1(AP2)	http://www.ncbi.nlm.nih.gov/gene/101259430	Upregulation	Microarray analysis, RT-PCR.	23277401	AGO1 level in CMV-Fny and CMV-Fny-satT1 infections, ARF10, MYB and NAC1 levels in CMV-Fny2b infection, and AP2, MYB and NAC1 levels in TAV-Bj infection were approximately double those of mock-inoculated plants.The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011062	Cytomegalovirus(CMV)	Solanum lycopersicum	Host	miRNA	sly-MIR172b(miR172)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0009977	-	-	Host	Protein	RAV1(AP2)	http://www.ncbi.nlm.nih.gov/gene/101259430	Upregulation	Microarray analysis, RT-PCR.	23277401	AGO1 level in CMV-Fny and CMV-Fny-satT1 infections, ARF10, MYB and NAC1 levels in CMV-Fny2b infection, and AP2, MYB and NAC1 levels in TAV-Bj infection were approximately double those of mock-inoculated plants.The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011063	Enterovirus 71(EV71)	Homo sapiens	Host	miRNA	hsa-mir-548(miRNA-548)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003593	HepG2 cells	Downregulation	Host	Protein	IFN-lambda1	http://www.ncbi.nlm.nih.gov/gene/282618	Downregulation	Cell culture, transfection, and detection of IFN-λ1 protein,Construction of 3′UTR reporter plasmid and luciferase reporter assay,Reverse transcription reaction and quantitative real-time PCR,Viruses and measurement of viral replication and expression,mRNA decay assay,In vitro cytotoxicity assays.	23150165	miRNA-548 mimics promoted infection by enteroVirus-71 (EV71) and vesicular stomatitis Virus (VSV), whereas their inhibitors significantly suppressed the replication of EV71 and VSV. Endogenous miRNA-548 levels were suppressed during viral infection. In conclusion, our results suggest that miRNA-548 regulates host antiviral response via direct targeting of IFN-lambda1, which may offer a potential candidate for antiviral therapy.
HHID00011064	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	has-mir-127(hsa-miR-127)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000472	Burkitt lymphoma	Upregulation	Host	mRNA	BCL6	http://www.ncbi.nlm.nih.gov/gene/604	Upregulation	Immunization and cell sorting, Luciferase assay, Quantitative reverse transcription-PCR, Retroviral infection, Indirect immunofluorescence, Western blotting(WB), B-cell isolation, Nucleofection.	22941339	The combinatorial expression of hsa-miR-127 and EBNA1 provides evidence of a modulation of B-cell markers in human memory B cells, resulting in a decrease of BLIMP-1, XBP-1 and IRF-4, and an increase in BCL-6 and CD10 mRNA, thus confirming the scenario previously observed in EBV-positive BL primary tumors and cell lines.
HHID00011065	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	has-mir-127(hsa-miR-127)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000472	Burkitt lymphoma	Upregulation	Host	mRNA	IRF4	http://www.ncbi.nlm.nih.gov/gene/3662	Downregulation	Immunization and cell sorting, Luciferase assay, Quantitative reverse transcription-PCR, Retroviral infection, Indirect immunofluorescence, Western blotting(WB), B-cell isolation, Nucleofection.	22941339	Our previous findings suggested that upregulation of hsa-miR-127 in EBV-positive BL may determine the downregulation of BLIMP-1 and XBP-1  and the consequent persistence of BCL-6 expression, as well as the GC phenotype in B cells that have already differentiated towards memory B cells in terms of Ig mutation pattern.
HHID00011066	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	has-mir-127(hsa-miR-127)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000472	Burkitt lymphoma	Upregulation	Host	mRNA	MME(CD10)	http://www.ncbi.nlm.nih.gov/gene/4311	Upregulation	Immunization and cell sorting, Luciferase assay, Quantitative reverse transcription-PCR, Retroviral infection, Indirect immunofluorescence, Western blotting(WB), B-cell isolation, Nucleofection.	22941339	The combinatorial expression of hsa-miR-127 and EBNA1 provides evidence of a modulation of B-cell markers in human memory B cells, resulting in a decrease of BLIMP-1, XBP-1 and IRF-4, and an increase in BCL-6 and CD10 mRNA, thus confirming the scenario previously observed in EBV-positive BL primary tumors and cell lines.
HHID00011067	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	has-mir-127(hsa-miR-127)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000472	Burkitt lymphoma	Upregulation	Host	mRNA	PRDM1(BLIMP-1)	http://www.ncbi.nlm.nih.gov/gene/639	Downregulation	Immunization and cell sorting, Luciferase assay, Quantitative reverse transcription-PCR, Retroviral infection, Indirect immunofluorescence, Western blotting(WB), B-cell isolation, Nucleofection.	22941339	Our previous findings suggested that upregulation of hsa-miR-127 in EBV-positive BL may determine the downregulation of BLIMP-1 and XBP-1  and the consequent persistence of BCL-6 expression, as well as the GC phenotype in B cells that have already differentiated towards memory B cells in terms of Ig mutation pattern .
HHID00011068	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	has-mir-127(hsa-miR-127)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000472	Burkitt lymphoma	Upregulation	Host	mRNA	XBP1	http://www.ncbi.nlm.nih.gov/gene/7494	Downregulation	Immunization and cell sorting, Luciferase assay, Quantitative reverse transcription-PCR, Retroviral infection, Indirect immunofluorescence, Western blotting(WB), B-cell isolation, Nucleofection.	22941339	Our previous findings suggested that upregulation of hsa-miR-127 in EBV-positive BL may determine the downregulation of BLIMP-1 and XBP-1  and the consequent persistence of BCL-6 expression, as well as the GC phenotype in B cells that have already differentiated towards memory B cells in terms of Ig mutation pattern.
HHID00011069	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-miR-142-3p(miR-142-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000434	NK/T-cell lymphomas	Downregulation	Host	Protein	IL1A	http://www.ncbi.nlm.nih.gov/gene/3552	Downregulation	Small RNA Cloning, qRT-PCR, Western Blotting, Northern Blot, ELISA, Sequence Annotation, Luciferase Assays.	22870299	We show that the proinflammatory cytokine interleukin 1 alpha(IL1A) is a target for miR-142-3p and the oncogenic  BCL6 for miR-205.MiR-205 was undetectable in EBV-negative lymphoma and strongly down-regulated in EBV-positive NK/T-cell lymphoma as compared to thymus.
HHID00011070	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-miR-296-3p(miR-296-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004679	Lymphoblastoid cell lines	-	Host	Protein	HbA1C	http://www.ncbi.nlm.nih.gov/gene/3039	-	miRNA microarray approach with early- (p6) and late-passage (p161) LCLs, Linear regression analysis.	21199010	MicroRNA signatures associated with immortalization of EBV-transformed lymphoblastoid cell lines and their clinical traits. In particular, miR-125b was up-regulated in all the tested late-passage LCLs. miR-99a, miR-125b, miR-216a and miR-1296 were putative negative regulators of RASGRP3, GPR160, PRKCH and XAF1, respectively, which were found to be differentially expressed in LCLs during long-term culture in a previous study. Linear regression analysis showed that miR-200a and miR-296-3p correlated with triglyceride and HbA1C levels.
HHID00011071	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-miR-338-3p(miR-338-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000763	LO2 cells	Downregulation	Host	Protein	CCND1(Cyclin D1)	http://www.ncbi.nlm.nih.gov/gene/595	Downregulation	Immunohistochemistry, Statistical Analysis, Luciferase Reporter Assay, RT-PCR and Western Blot Analysis, EdU Assay, Cell Cycle Assay, Cell Transfection.	22942717	This study demonstrates that miR-338-3p inhibits proliferation by regulating CyclinD1, and HBx down-regulates miR-338-3p in HCC.
HHID00011072	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-125b(miR-125b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000446	Lymphoblastoid cell lines	-	Host	Protein	GPR160	http://www.ncbi.nlm.nih.gov/gene/26996	Downregulation	miRNA microarray approach with early- (p6) and late-passage (p161) LCLs, Linear regression analysis.	21199010	MicroRNA signatures associated with immortalization of EBV-transformed lymphoblastoid cell lines and their clinical traits. In particular, miR-125b was up-regulated in all the tested late-passage LCLs. miR-99a, miR-125b, miR-216a and miR-1296 were putative negative regulators of RASGRP3, GPR160, PRKCH and XAF1, respectively, which were found to be differentially expressed in LCLs during long-term culture in a previous study. Linear regression analysis showed that miR-200a and miR-296-3p correlated with triglyceride and HbA1C levels.
HHID00011073	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-127(hsa-miR-127)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000472	B-cells	Upregulation	Host	Protein	BLIMP1	http://www.ncbi.nlm.nih.gov/gene/639	-	Real-time PCR, Laser capture microdissection, Reporter construction and luciferase assay, Western blotting.	19530237	We found evidence that hsa-miR-127 is involved in B-cell differentiation process through posttranscriptional regulation of BLIMP1 and XBP1. The overexpression of this miRNA may thus represent a key event in the lymphomagenesis of EBV positive BL, by blocking the B-cell differentiation process.
HHID00011074	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-127(hsa-miR-127)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000472	B-cells	Upregulation	Host	Protein	XBP1	http://www.ncbi.nlm.nih.gov/gene/7495	-	Real-time PCR, Laser capture microdissection, Reporter construction and luciferase assay, Western blotting.	19530237	We found evidence that hsa-miR-127 is involved in B-cell differentiation process through posttranscriptional regulation of BLIMP1 and XBP1. The overexpression of this miRNA may thus represent a key event in the lymphomagenesis of EBV positive BL, by blocking the B-cell differentiation process.
HHID00011075	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-1296(miR-1296)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003780	Lymphoblastoid cell lines	-	Host	Protein	XAF1	http://www.ncbi.nlm.nih.gov/gene/54739	Downregulation	miRNA microarray approach with early- (p6) and late-passage (p161) LCLs, Linear regression analysis.	21199010	MicroRNA signatures associated with immortalization of EBV-transformed lymphoblastoid cell lines and their clinical traits. In particular, miR-125b was up-regulated in all the tested late-passage LCLs. miR-99a, miR-125b, miR-216a and miR-1296 were putative negative regulators of RASGRP3, GPR160, PRKCH and XAF1, respectively, which were found to be differentially expressed in LCLs during long-term culture in a previous study. Linear regression analysis showed that miR-200a and miR-296-3p correlated with triglyceride and HbA1C levels.
HHID00011076	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-155	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	-	Downregulation	Host	Protein	C-MYB	http://www.ncbi.nlm.nih.gov/gene/4602	Downregulation	Immunohistochemistry, Differential expression detection, In silico target prediction, Small RNA cloning, Transfection and luciferase assay, Northern blot, Sequence annotation, MicroRNA blocking assay and western blot, Reverse transcription and semi-quantitative RT?PCR, Statistical analysis.	21062812	microRNA profiling in Epstein-Barr virus-associated B-cell lymphoma. We show that c-MYB is targeted by miR-155 and miR-424.Downregulation of miR-155 and miR-424 was demonstrated by northern blotting.In summary, c-MYB is negatively regulated by both miR-155 and -424.
HHID00011077	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-155	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	-	Downregulation	Host	Protein	C-SKI	http://www.ncbi.nlm.nih.gov/gene/6498	Downregulation	Immunohistochemistry, Differential expression detection, In silico target prediction, Small RNA cloning, Transfection and luciferase assay, Northern blot, Sequence annotation, MicroRNA blocking assay and western blot, Reverse transcription and semi-quantitative RT?PCR, Statistical analysis.	21062812	microRNA profiling in Epstein-Barr virus-associated B-cell lymphoma. C-SKI is potentially regulated by miR-155.while SIAH1 is down-modulated by miR-424 and c-SKI is potentially downregulated by miR-155.Downregulation of miR-155 and miR-424 was demonstrated by northern blotting.
HHID00011078	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	MC3 cells	-	Host	Protein	SPI1(PU.1)	http://www.ncbi.nlm.nih.gov/gene/6688	Downregulation	Infection and time course, Viral generation, Transient transfection, Chromatin immunoprecipitation assay, Preparation of nuclear extracts and electrophoresis mobility shift assay, Reporter analysis, Western blot analysis, Transient transfection of MC3, Cloning and mutagenesis of BIC/miR-155 promoter, RNA preparation and northern blot.	18940871	Finally,we demonstrate that LMP1-mediated activation of miR-155 in an EBV-negative background correlates with reduction of protein PU.1, which is a possible miR targe.
HHID00011079	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-18a(miR-18a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000072	Nasopharyngeal epithelial tissues	-	Host	mRNA	DICER1(Dicer1)	http://www.ncbi.nlm.nih.gov/gene/23405	Downregulation	Luciferase assay.	23097559	Further studies demonstrated that miR-18a negatively regulated Dicer1 by binding to the 3' untranslated regions of Dicer1.
HHID00011080	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-200b(miR200b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000342	Epithelial gastric carcinoma AGSB95.8 cells	-	Host	Protein	ZEB1	http://www.ncbi.nlm.nih.gov/gene/6935	Downregulation	RT-qPCR, Immunoblot analysis, Transient transfection assays, IFS, Assay for infectious EBV, Statistical analysis.	20668090	We show that miR200b and miR429, but not miR200a, can induce EBV-positive cells into lytic replication by downregulating expression of ZEB1 and ZEB2, leading to production of infectious virus.
HHID00011081	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-203a(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000283	Epithelial cells	Downregulation	Host	Protein	CCNG1	http://www.ncbi.nlm.nih.gov/gene/900	-	RNA extraction and RT-PCR, Experiments in nude mice, ISH and immunohistochemical analysis, Design of siRNA and Western blotting, Luciferase reporter assay, Assessment of pathway inhibition, EBV infection and parallel controls, Statistical analysis, Flow cytometry analysis.	22205737	EBV-LMP1 mediated the downregulation of miR-203 at the primary transcript level. E2F3 and CCNG1 were identified as target genes of miR-203.Overexpression of the targets overcame the effects of miR-203 mimics on the cell cycle, and the expression of target genes in tumor models was inhibited by miR-203.
HHID00011082	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-203a(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000283	Epithelial cells	Downregulation	Host	Protein	E2F3	http://www.ncbi.nlm.nih.gov/gene/1871	-	RNA extraction and RT-PCR, Experiments in nude mice, ISH and immunohistochemical analysis, Design of siRNA and Western blotting, Luciferase reporter assay, Assessment of pathway inhibition, EBV infection and parallel controls, Statistical analysis, Flow cytometry analysis.	22205737	EBV-LMP1 mediated the downregulation of miR-203 at the primary transcript level. E2F3 and CCNG1 were identified as target genes of miR-203.Overexpression of the targets overcame the effects of miR-203 mimics on the cell cycle, and the expression of target genes in tumor models was inhibited by miR-203.
HHID00011083	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-203b(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0017343	Epithelial cells	Downregulation	Host	Protein	CCNG1	http://www.ncbi.nlm.nih.gov/gene/900	-	RNA extraction and RT-PCR, Experiments in nude mice, ISH and immunohistochemical analysis, Design of siRNA and Western blotting, Luciferase reporter assay, Assessment of pathway inhibition, EBV infection and parallel controls, Statistical analysis, Flow cytometry analysis.	22205737	EBV-LMP1 mediated the downregulation of miR-203 at the primary transcript level. E2F3 and CCNG1 were identified as target genes of miR-203.Overexpression of the targets overcame the effects of miR-203 mimics on the cell cycle, and the expression of target genes in tumor models was inhibited by miR-203.
HHID00011084	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-203b(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0017343	Epithelial cells	Downregulation	Host	Protein	E2F3	http://www.ncbi.nlm.nih.gov/gene/1871	-	RNA extraction and RT-PCR, Experiments in nude mice, ISH and immunohistochemical analysis, Design of siRNA and Western blotting, Luciferase reporter assay, Assessment of pathway inhibition, EBV infection and parallel controls, Statistical analysis, Flow cytometry analysis.	22205737	EBV-LMP1 mediated the downregulation of miR-203 at the primary transcript level. E2F3 and CCNG1 were identified as target genes of miR-203.Overexpression of the targets overcame the effects of miR-203 mimics on the cell cycle, and the expression of target genes in tumor models was inhibited by miR-203.
HHID00011085	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-205(miR-205)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000285	NK/T-cell lymphomas	Downregulation	Host	Protein	BCL6	http://www.ncbi.nlm.nih.gov/gene/604	-	Small RNA Cloning, qRT-PCR, Western Blotting, Northern Blot, ELISA, Sequence Annotation, Luciferase Assays.	22870299	We show that the proinflammatory cytokine interleukin 1 alpha(IL1A) is a target for miR-142-3p and the oncogenic  BCL6 for miR-205.MiR-205 was undetectable in EBV-negative lymphoma and strongly down-regulated in EBV-positive NK/T-cell lymphoma as compared to thymus.
HHID00011086	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-216a(miR-216a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000292	Lymphoblastoid cell lines	-	Host	Protein	PRKCH	http://www.ncbi.nlm.nih.gov/gene/5583	Downregulation	miRNA microarray approach with early- (p6) and late-passage (p161) LCLs, Linear regression analysis.	21199010	MicroRNA signatures associated with immortalization of EBV-transformed lymphoblastoid cell lines and their clinical traits. In particular, miR-125b was up-regulated in all the tested late-passage LCLs. miR-99a, miR-125b, miR-216a and miR-1296 were putative negative regulators of RASGRP3, GPR160, PRKCH and XAF1, respectively, which were found to be differentially expressed in LCLs during long-term culture in a previous study. Linear regression analysis showed that miR-200a and miR-296-3p correlated with triglyceride and HbA1C levels.
HHID00011087	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-34a(miR-34a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000268	Lymphoblastoid cell lines	-	Host	Protein	TP53(P53)	http://www.ncbi.nlm.nih.gov/gene/7157	-	Growth experiments/Western blotting/Quantitative real-time(qRT) PCR.	22496226	However,one miRNA described as a p53-targeted tumor suppressor, miR-34a, was strongly induced by EBV infection and expressed in many EBV and Kaposi's sarcoma-associated herpesvirus(KSHV)-infected lymphoma cell lines.
HHID00011088	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-424	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001446	-	Downregulation	Host	Protein	C-MYB	http://www.ncbi.nlm.nih.gov/gene/4602	Downregulation	Immunohistochemistry, Differential expression detection, In silico target prediction, Small RNA cloning, Transfection and luciferase assay, Northern blot, Sequence annotation, MicroRNA blocking assay and western blot, Reverse transcription and semi-quantitative RT?PCR, Statistical analysis.	21062812	microRNA profiling in Epstein-Barr virus-associated B-cell lymphoma. We show that c-MYB is targeted by miR-155 and miR-424.Downregulation of miR-155 and miR-424 was demonstrated by northern blotting.In summary, c-MYB is negatively regulated by both miR-155 and -424.
HHID00011089	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-424	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001446	DLBCL	Downregulation	Host	Protein	SIAH1	http://www.ncbi.nlm.nih.gov/gene/6477	Downregulation	Immunohistochemistry, Differential expression detection, In silico target prediction, Small RNA cloning, Transfection and luciferase assay, Northern blot, Sequence annotation, MicroRNA blocking assay and western blot, Reverse transcription and semi-quantitative RT?PCR, Statistical analysis.	21062812	microRNA profiling in Epstein-Barr virus-associated B-cell lymphoma. The tumor suppressor SIAH1 is targeted by miR-424 .Downregulation of miR-155 and miR-424 was demonstrated by northern blotting.This protein blot confirms the experiments that showed a downregulation of the SIAH1-3'UTR by miR-424.
HHID00011090	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-429(miR429)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001641	Epithelial gastric carcinoma AGSB95.8 cells	-	Host	Protein	ZEB2	http://www.ncbi.nlm.nih.gov/gene/9839	Downregulation	RT-qPCR, Immunoblot analysis, Transient transfection assays, IFS, Assay for infectious EBV, Statistical analysis.	20668090	We show that miR200b and miR429, but not miR200a, can induce EBV-positive cells into lytic replication by downregulating expression of ZEB1 and ZEB2, leading to production of infectious virus.
HHID00011091	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-99a(miR-99a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000101	Lymphoblastoid cell lines	-	Host	Protein	RASGRP3	http://www.ncbi.nlm.nih.gov/gene/25780	Downregulation	miRNA microarray approach with early- (p6) and late-passage (p161) LCLs, Linear regression analysis.	21199010	MicroRNA signatures associated with immortalization of EBV-transformed lymphoblastoid cell lines and their clinical traits. In particular, miR-125b was up-regulated in all the tested late-passage LCLs. miR-99a, miR-125b, miR-216a and miR-1296 were putative negative regulators of RASGRP3, GPR160, PRKCH and XAF1, respectively, which were found to be differentially expressed in LCLs during long-term culture in a previous study. Linear regression analysis showed that miR-200a and miR-296-3p correlated with triglyceride and HbA1C levels.
HHID00011092	Gallid herpesvirus 2(GaHV-2)	Gallus gallus	Host	miRNA	gga-mir-21(gga-miR-21)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004994	Virulent strain(RB-1B),vaccine strain(CVI988).	Upregulation	Host	Protein	PDCD4	http://www.ncbi.nlm.nih.gov/gene/374191	-	Luciferase assays.	23055556	GaHV-2 encodes a basic leucine zipper (bZIP) protein of the AP-1 family, Meq. We show here that the viral oncoprotein Meq binds to this promoter, thereby transactivating gga-miR-21 expression. We confirmed that this miRNA targets chicken programmed death cell 4(PDCD4) and promotes tumor cell growth and apoptosis escape.
HHID00011093	Hendra virus	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Blood	Upregulation	Host	Protein	RNF11	http://www.ncbi.nlm.nih.gov/gene/26994	Downregulation	-	23345523	In this work, we demonstrate that Hendra virus makes use of a microRNA (miRNA) designated miR-146a, an NFKB-responsive miRNA upregulated by several innate immune ligands, to favor its replicationIn silico analysis of miR-146a targets identified ring finger protein(RNF)11, a member of the A20 ubiquitin editing complex that negatively regulates NFKB activity, as a novel component of Hendra virus replication;silencing of RNF11 promotes Hendra virus replication in vitro.
HHID00011094	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7c(let-7c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000064	liver	Downregulation	Host	Protein	BCL2L1(Bcl-xl)	http://www.ncbi.nlm.nih.gov/gene/598	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011095	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7c(let-7c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000064	liver	Downregulation	Host	Protein	MCL1(Mcl-1)	http://www.ncbi.nlm.nih.gov/gene/4170	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011096	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7c(let-7c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000064	liver	Downregulation	Host	Protein	MYC(c-Myc)	http://www.ncbi.nlm.nih.gov/gene/4609	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011097	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7g(let-7g)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	liver	Downregulation	Host	Protein	BCL2L1(Bcl-xl)	http://www.ncbi.nlm.nih.gov/gene/598	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011098	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7g(let-7g)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	liver	Downregulation	Host	Protein	COL1A2	http://www.ncbi.nlm.nih.gov/gene/1278	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011099	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7g(let-7g)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	liver	Downregulation	Host	Protein	MYC(c-Myc)	http://www.ncbi.nlm.nih.gov/gene/4609	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011100	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7i(let-7i)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000434	HCC cells	-	Host	Protein	CD59	http://www.ncbi.nlm.nih.gov/gene/966	Upregulation	Complement-dependent cytotoxicity.	22425745	HBx up-regulates CD59 by let-7i at the post-transcriptional level, contributing to escape of HCC cells from complement-dependent cytotoxicity.
HHID00011101	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-miR-199a-3p(miR-199a-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000232	liver	Downregulation	Host	Protein	CD44	http://www.ncbi.nlm.nih.gov/gene/960	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011102	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-miR-199a-3p(miR-199a-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000232	liver	Downregulation	Host	Protein	MTOR	http://www.ncbi.nlm.nih.gov/gene/2475	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011103	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-miR-199a-3p(miR-199a-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000232	liver	Downregulation	Host	Protein	PAK4	http://www.ncbi.nlm.nih.gov/gene/10298	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011104	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-miR-199a-5p(miR-199a-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000231	HCC and adjacent non-tumor tissues	-	Host	Protein	CLTC(CHC)	http://www.ncbi.nlm.nih.gov/gene/1213	Upregulation	Western blotting and luciferase assay.	23082062	Identification of deregulated miRNAs and their targets in hepatitis B virus-associated hepatocellular carcinoma. MiR-519a and ribosomal protein S6 kinase polypeptide 3(RPS6KA3) were predicted as the most significant candidates by miRNA-mRNA network. In addition, cyclin D3(CCND3) and clathrin heavy chain(CHC), usually up-regulated in HCC tissues, were validated as the direct target of miR-138 and miR-199a-5p, respectively.
HHID00011105	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-miR-338-3p(miR-338-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000763	LO2/HBx-d382 cells	-	Host	mRNA	CCND1(CyclinD1)	http://www.ncbi.nlm.nih.gov/gene/595	Downregulation	Western Blot Analysis, Quantitative Real-time PCR (qRT-PCR) Analysis, Gene Sequence Analysis and Primer Design, Statistical Analysis, EdU Assay, Soft Agar Colony Formation Assay, Cell Cycle Assay, Cell Transfection, RT-PCR Analysis.	22912826	miR-338-3p expression inhibited cell proliferation in LO2/HBx-d382 cells (and LO2/HBx cells), and also negatively regulated CyclinD1 protein expression. Of the two putative miR-338-3p binding sites in the CyclinD1-3'UTR region, the effect of miR-338-3p on the second binding site (nt 2397-2403) was required for the inhibition.
HHID00011106	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-1-1(miR-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000651	Hepatoma cells	-	Host	Protein	E2F5	http://www.ncbi.nlm.nih.gov/gene/1875	Upregulation	Western Blot Analysis, Microarray Analysis, Real-Time RT-PCR Assay, Vector Construction and Luciferase Reporter Assay, Cell Proliferation and Cell Cycle Analysis, Statistical Analysis.	21520166	It was noted that microRNA-1 (miR-1) transfection resulted in a marked increase of HBV replication, accompanied with up-regulated HBV transcription, antigen expression, and progeny secretion. However, bioinformatics and luciferase reporter analysis suggested that miR-1 may not target the HBV genome directly but regulate the expression of host genes to enhance HBV replication. Further studies showed that miR-1 was able to enhance the HBV core promoter transcription activity by augmenting farnesoid X receptor alpha expression. In addition, miR-1 arrested the cell cycle at the G(1) phase and inhibited cell proliferation by targeting histone deacetylase 4 and E2F transcription factor 5.
HHID00011107	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-1-1(miR-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000651	Hepatoma cells	-	Host	Protein	FXRA	#	Upregulation	Western Blot Analysis, Microarray Analysis, Real-Time RT-PCR Assay, Vector Construction and Luciferase Reporter Assay, Cell Proliferation and Cell Cycle Analysis, Statistical Analysis.	21520166	It was noted that microRNA-1 (miR-1) transfection resulted in a marked increase of HBV replication, accompanied with up-regulated HBV transcription, antigen expression, and progeny secretion. However, bioinformatics and luciferase reporter analysis suggested that miR-1 may not target the HBV genome directly but regulate the expression of host genes to enhance HBV replication. Further studies showed that miR-1 was able to enhance the HBV core promoter transcription activity by augmenting farnesoid X receptor alpha  expression. In addition, miR-1 arrested the cell cycle at the G(1) phase and inhibited cell proliferation by targeting histone deacetylase 4 and E2F transcription factor 5.
HHID00011108	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-1-1(miR-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000651	Hepatoma cells	-	Host	Protein	HDAC4	http://www.ncbi.nlm.nih.gov/gene/9759	Upregulation	Western Blot Analysis, Microarray Analysis, Real-Time RT-PCR Assay, Vector Construction and Luciferase Reporter Assay, Cell Proliferation and Cell Cycle Analysis, Statistical Analysis.	21520166	It was noted that microRNA-1 (miR-1) transfection resulted in a marked increase of HBV replication, accompanied with up-regulated HBV transcription, antigen expression, and progeny secretion. However, bioinformatics and luciferase reporter analysis suggested that miR-1 may not target the HBV genome directly but regulate the expression of host genes to enhance HBV replication. Further studies showed that miR-1 was able to enhance the HBV core promoter transcription activity by augmenting farnesoid X receptor alpha expression. In addition, miR-1 arrested the cell cycle at the G(1) phase and inhibited cell proliferation by targeting histone deacetylase 4 and E2F transcription factor 5.
HHID00011109	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-101(miR-101)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000103	Hepatic cells	Downregulation	Host	Protein	DNMT3A	http://www.ncbi.nlm.nih.gov/gene/1788	-	3'-UTR reporter assay.	23124077	miR-101 is down-regulated by the hepatitis B virus x protein and induces aberrant DNA methylation by targeting DNA methyltransferase 3A.The direct target of miR-101, DNA methyltransferase 3A(DNMT3A), was identified in silico and validated using a 3'-UTR reporter assay.
HHID00011110	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	Hepatoma cells	Upregulation	Host	Protein	HO-1	http://www.ncbi.nlm.nih.gov/gene/3162	Downregulation	Immunoblot analysis, Detection of HBsAg and HBeAg, RNA extraction and real-time PCR, Statistical analysis.	20633528	miR-122-induced down-regulation of HO-1 negatively affects miR-122-mediated suppression of HBV. We further found that the down-regulation of Heme oxygenase-1 (HO-1) by miR-122 plays a negative role in the miR-122-mediated inhibition of viral expression.
HHID00011111	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	Liver tissues	Downregulation	Host	Protein	CCNG1(cyclin G1)	http://www.ncbi.nlm.nih.gov/gene/900	Upregulation	A luciferase reporter system, and electrophoretic mobility shift assay, Overexpression and knockdown studies coimmunoprecipitation.	22105316	We also observed that cyclin G(1) expression was up-regulated in HBV-infected patients, and cyclin G(1) levels were inversely associated with miR-122 expression in liver tissues.
HHID00011112	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	liver	Downregulation	Host	Protein	PBF	http://www.ncbi.nlm.nih.gov/gene/754	Upregulation	Luciferase assays.	23221562	We next identified pituitary tumor-transforming gene 1(PTTG1) binding factor (PBF) as a target of miR-122 and demonstrated that HBV replication causes an obvious increase in PBF levels.
HHID00011113	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	liver	Downregulation	Host	Protein	cyclin G1	http://www.ncbi.nlm.nih.gov/gene/595	Upregulation	Luciferase assays.	23221562	Loss of miR-122 expression in patients with hepatitis B enhances hepatitis B Virus replication through cyclin G1-modulated P53 activity.
HHID00011114	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	liver	Downregulation	Host	Protein	ADAM10	http://www.ncbi.nlm.nih.gov/gene/102	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011115	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	liver	Downregulation	Host	Protein	ADAM17	http://www.ncbi.nlm.nih.gov/gene/6868	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011116	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	liver	Downregulation	Host	Protein	BCL2L2(BCL-W)	http://www.ncbi.nlm.nih.gov/gene/599	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011117	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	liver	Downregulation	Host	Protein	CCNG1(cyclin G1)	http://www.ncbi.nlm.nih.gov/gene/900	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011118	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	liver	Downregulation	Host	Protein	CUX1	http://www.ncbi.nlm.nih.gov/gene/1523	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011119	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	liver	Downregulation	Host	Protein	IGF1R(Igf1R)	http://www.ncbi.nlm.nih.gov/gene/3480	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011120	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	liver	Downregulation	Host	Protein	PEG10	http://www.ncbi.nlm.nih.gov/gene/23089	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011121	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	liver	Downregulation	Host	Protein	RHOA(RhoA)	http://www.ncbi.nlm.nih.gov/gene/387	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011122	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	liver	Downregulation	Host	Protein	SRF	http://www.ncbi.nlm.nih.gov/gene/6722	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011123	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	liver	Downregulation	Host	Protein	VIM(Vimentin)	http://www.ncbi.nlm.nih.gov/gene/7431	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011124	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-124-1(miR-124)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000443	liver	Downregulation	Host	Protein	CDK6	http://www.ncbi.nlm.nih.gov/gene/1021	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011125	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-124-1(miR-124)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000443	liver	Downregulation	Host	Protein	IL-6R	http://www.ncbi.nlm.nih.gov/gene/3570	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011126	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-124-1(miR-124)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000443	liver	Downregulation	Host	Protein	IQGAP1	http://www.ncbi.nlm.nih.gov/gene/8826	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011127	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-124-1(miR-124)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000443	liver	Downregulation	Host	Protein	SMYD3	http://www.ncbi.nlm.nih.gov/gene/64754	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011128	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-124-1(miR-124)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000443	liver	Downregulation	Host	Protein	VIM(Vimentin)	http://www.ncbi.nlm.nih.gov/gene/7431	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011129	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-138(miR-138)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000476	HCC and adjacent non-tumor tissues	-	Host	Protein	CCND3	http://www.ncbi.nlm.nih.gov/gene/896	Upregulation	Western blotting and luciferase assay.	23082062	Identification of deregulated miRNAs and their targets in hepatitis B virus-associated hepatocellular carcinoma. MiR-519a and ribosomal protein S6 kinase polypeptide 3(RPS6KA3) were predicted as the most significant candidates by miRNA-mRNA network. In addition, cyclin D3(CCND3) and clathrin heavy chain(CHC), usually up-regulated in HCC tissues, were validated as the direct target of miR-138 and miR-199a-5p, respectively.
HHID00011130	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-141(miR-141)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000457	HepG2 cells	-	Host	Protein	PPARA	http://www.ncbi.nlm.nih.gov/gene/5465	Downregulation	Promoter functional analysis.	22479552	Our results suggest that miR-141 suppressed HBV replication by reducing HBV promoter activities by down-regulating PPARA.
HHID00011131	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-143(miR-143)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000459	Hepatocellular	Upregulation	Host	Protein	FNDC3B	http://www.ncbi.nlm.nih.gov/gene/64778	Downregulation	Western Blot Analysis, Luciferase Reporter Assay, Chromatin Immunoprecipitation Assay, Reverse Transcription Reaction and Quantitative Real-Time PCR.	19472311	Additionally,fibronectin type III domain containing 3B(FNDC3B), which regulates cell motility, was identified as the direct and functional target of miR-143 both in vivo and in vitro. Up-regulation of miR-143 expression transcribed by NF-kappaB in HBV-HCC promotes cancer cell invasion/migration and tumor metastasis by repression of FNDC3B expression. .
HHID00011132	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-143(miR-143)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000459	Hepatocellular	Upregulation	Host	Protein	FNDC3B	http://www.ncbi.nlm.nih.gov/gene/64778	Downregulation	Western Blot Analysis, Transwell Invasion Assay, Flow Cytometric Analysis, Luciferase Reporter Assay, miRNA microarray, Chromatin Immunoprecipitation Assay, Reverse Transcription Reaction and Quantitative Real-Time PCR.	19472311	Up-regulation of miR-143 expression transcribed by NF-kappaB in HBV-HCC promotes cancer cell invasion/migration and tumor metastasis by repression of FNDC3B expression.
HHID00011133	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-148a(miR-148a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000253	HepG2 and Hep3B cells	-	Host	Protein	PTEN	http://www.ncbi.nlm.nih.gov/gene/5728	Downregulation	Tumorigenesis and Cell Migration Assays, qRT-PCR/Western Blotting/Anchorage Independent Growth.	22496917	Role of miR-148a in hepatitis B associated hepatocellular carcinoma. Introduction of anti-miR-148a increased PTEN protein and mRNA expression, suggesting that PTEN was targeted by miR-148a.
HHID00011134	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-152(miR-152)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000462	Liver cells	Downregulation	Host	Protein	DNMT1	http://www.ncbi.nlm.nih.gov/gene/1786	Downregulation	Luciferase Reporter Assa, Western Blot Analysi, Reverse-Transcription Reaction and Quantitative Real-Time PCR, Global DNA Methylation (GDM) Studies, DNA Extraction and Bisul?te Treatmen.	20578129	Our findings suggest that miR-152 is frequently down-regulated and regulates DNMT1 in HBV-related HCC.
HHID00011135	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	HepG2	-	Host	Protein	SOCS1	http://www.ncbi.nlm.nih.gov/gene/8651	Downregulation	Reverse Transcriptase Polymerase Chain Reaction (RT-PCR) assay, Quantitative reverse transcription-PCR assay, Statistical analyzes, Cell proliferation assay, Western blot.	21762537	MiR-155 enhances innate antiviral immunity through promoting JAK/STAT signaling pathway by targeting SOCS1, and mildly inhibits HBV infection in human hepatoma cells.
HHID00011136	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-16(miR-16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000070	liver	Downregulation	Host	Protein	BCL2	http://www.ncbi.nlm.nih.gov/gene/596	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011137	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-181a-1(miR-181a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000289	Liver cells	Upregulation	Host	Protein	HLA-A	http://www.ncbi.nlm.nih.gov/gene/3105	Downregulation	Genotypic characterization of human leukocyte antigen (HLA), Computational prediction of miRNA targets, Northern blotting analysis, Flow cytometric (FCM) analysis, miRNA microarray analysis.	19187610	Altered expression profiles of microRNAs in a stable hepatitis B virus-expressing cell line. The 3'-UTR of HLA-A gene had one partially complementary site for miR-181a and miR-181a might down-regulate the expression of HLA-A.
HHID00011138	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-197(miR-197)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000239	THP-1 cells	-	Host	Protein	Interleukin-18(IL-18)	http://www.ncbi.nlm.nih.gov/gene/3606	-	Predicted.	23710316	miR-197 Expression in Peripheral Blood Mononuclear Cells from Hepatitis B Virus-Infected Patients. IL-18,a key regulator in inflammation and immunity, was inversely correlated with miR-197 levels. Bioinformatic analysis indicated that IL-18 was a target of miR-197. Exogenous expression of miR-197 could significantly repress IL-18 expression at both the mRNA and protein levels in THP-1 cells.
HHID00011139	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-21(miR-21)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000077	liver	Upregulation	Host	Protein	MMP9	http://www.ncbi.nlm.nih.gov/gene/4318	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011140	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-21(miR-21)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000077	liver	Upregulation	Host	Protein	PTEN	http://www.ncbi.nlm.nih.gov/gene/5728	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011141	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-216a(miR-216a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000292	Liver cells	-	Host	Protein	CADM1(TSLC1)	http://www.ncbi.nlm.nih.gov/gene/23705	Downregulation	Chromatin immunoprecipitation (ChIP), Pri-miR-216a 5'-Promoter Region Driven Luciferase Reporter Constructs, 5'RACE Analysis.	22392644	we demonstrated that pri-miR-216a is activated transcriptionally by the androgen pathway in a ligand-dependent manner and is further enhanced by the hepatitis B virus X protein. One target of miR-216a was shown to be the tumor suppressor in lung cancer-1 gene(TSLC1) messenger RNA(mRNA) through the three target sites at its 3' untranslated region.
HHID00011142	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-22(miR-22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000078	Hepatocellular carcinoma(HCC) cell lines	Downregulation	Host	Protein	CDKN1A	http://www.ncbi.nlm.nih.gov/gene/5063	-	-	23582783	MicroRNA-22 is down-regulated in hepatitis B virus-related hepatocellular carcinoma. Cyclin-dependent kinase inhibitor 1A(CDKN1A) was found to be inversely correlated with miR-22 and was identified as a target of miR-22.
HHID00011143	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-221(miR-221)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000298	liver	Upregulation	Host	Protein	CDKN1B(CDKN1B/p27)	http://www.ncbi.nlm.nih.gov/gene/1027	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011144	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-221(miR-221)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000298	liver	Upregulation	Host	Protein	CDKN1C(CDKN1C/p57)	http://www.ncbi.nlm.nih.gov/gene/1028	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011145	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-221(miR-221)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000298	liver	Upregulation	Host	Protein	DDIT4	http://www.ncbi.nlm.nih.gov/gene/54541	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011146	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-222(miR-222)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000299	liver	Upregulation	Host	Protein	PPP2R2A	http://www.ncbi.nlm.nih.gov/gene/5520	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011147	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-26a-1(miR-26a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000083	liver	Downregulation	Host	Protein	CCND2(cyclin D2)	http://www.ncbi.nlm.nih.gov/gene/894	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011148	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-26a-1(miR-26a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000083	liver	Downregulation	Host	Protein	CCNE2(cyclin E2)	http://www.ncbi.nlm.nih.gov/gene/9134	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011149	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	liver	Downregulation	Host	Protein	BCL2	http://www.ncbi.nlm.nih.gov/gene/596	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011150	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	liver	Downregulation	Host	Protein	MCL1(Mcl-1)	http://www.ncbi.nlm.nih.gov/gene/4170	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011151	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	HepG2 cells	-	Host	Protein	PTEN	http://www.ncbi.nlm.nih.gov/gene/5728	Upregulation	RNA interference, qRT-PCR, Wound healing assay, RNA extraction, Construction of plasmids, Modified boyden's chamber assay, Dual-luciferase reporter gene assay, Western blot analysis, Statistical analysis.	21573166	Moreover,we identified PTEN was one of the target genes of miR-29a in HepG2 cells.Moreover, our data showed that the modulation of Akt phosphorylation, a downstream factor of PTEN, was involved in the cell migration enhanced by miR-29a, suggesting that miR-29a is responsible for the cell migration through its target gene PTEN. Thus, we conclude that miR-29a is involved in the regulation of migration of hepatoma cells mediated by HBx through PTEN in cell culture model.
HHID00011152	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	Hepatoma cells	-	Host	Protein	PTEN	http://www.ncbi.nlm.nih.gov/gene/5728	Downregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	Phosphataseand tensin homolog(PTEN), a crucial tumor suppressor, has been identified as one of the target genes of miR-29a. Overexpression of miR-29a in hepatoma cells results in downregulation of PTEN and increases serine phosphorylation of its downstream component.
HHID00011153	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	liver	Downregulation	Host	Protein	PPM1D	http://www.ncbi.nlm.nih.gov/gene/8493	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011154	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	liver	Downregulation	Host	Protein	PTEN	http://www.ncbi.nlm.nih.gov/gene/5728	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011155	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-29c(miR-29c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	HepG2.2.15 cells	Downregulation	Host	Protein	TNFAIP3	http://www.ncbi.nlm.nih.gov/gene/7128	Downregulation	Apoptosis assay, qRT-PCR, HBsAg and HBeAg assay, transfection, HBV-DNA assay, western blot analysis, luciferase reporter assay, bioinformatics analysis, cell proliferation assay.	21763284	Here, we report that miR-29c was significantly downregulated in hepatitis B virus (HBV)-related hepatocellular carcinoma (HCC) cell lines as well as in clinical tissues compared with their corresponding controls.Tumor necrosis factor alpha-induced protein 3 (TNFAIP3), a key regulator in inflammation and immunity, was found to be inversely correlated with miR-29c levels and was identified as a target of miR-29c. Overexpression of miR-29c in HepG2.2.15 cells effectively suppressed TNFAIP3 expression and HBV DNA replication as well as inhibited cell proliferation and induced apoptosis.
HHID00011156	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-34a(miR-34a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000268	liver	Downregulation	Host	Protein	ALDH2	http://www.ncbi.nlm.nih.gov/gene/217	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011157	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-34a(miR-34a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000268	liver	Downregulation	Host	Protein	GFAP	http://www.ncbi.nlm.nih.gov/gene/2670	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011158	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-34a(miR-34a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000268	liver	Downregulation	Host	Protein	LMNA	http://www.ncbi.nlm.nih.gov/gene/4000	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011159	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-34a(miR-34a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000268	liver	Downregulation	Host	Protein	LOC100129335	http://www.ncbi.nlm.nih.gov/gene/100129335	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011160	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-34a(miR-34a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000268	liver	Downregulation	Host	Protein	MACF1	http://www.ncbi.nlm.nih.gov/gene/23499	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011161	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-34a(miR-34a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000268	liver	Downregulation	Host	Protein	MET(c-Met)	http://www.ncbi.nlm.nih.gov/gene/4233	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011162	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-372(miR-372)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000780	HepG2.2.15 cells	Upregulation	Host	Protein	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	Western blotting and luciferase reporter assays.	21608007	Further,nuclear factor I/B(NFIB) was identified to be a direct functional target of miRs-372/373 by in silico algorithms and this was subsequently confirmed by western blotting and luciferase reporter assays.Our study revealed that miRNA(miRs-372/373) can promote HBV expression through a pathway involving the transcription factor(NFIB). .
HHID00011163	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-373(miR-373)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000781	HepG2.2.15 cells	Upregulation	Host	Protein	NFIB	http://www.ncbi.nlm.nih.gov/gene/4781	-	Western blotting and luciferase reporter assays.	21608007	Further,nuclear factor I/B(NFIB) was identified to be a direct functional target of miRs-372/373 by in silico algorithms and this was subsequently confirmed by western blotting and luciferase reporter assays.Our study revealed that miRNA(miRs-372/373) can promote HBV expression through a pathway involving the transcription factor(NFIB). .
HHID00011164	Hepatitis B virus(HBV)	Mus musculus	Host	miRNA	mmu-mir-148a(miR-148a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000550	Hepatocellular carcinoma	Downregulation	Host	Protein	Tnfrsf12a(HPIP)	http://www.ncbi.nlm.nih.gov/gene/27279	-	Luciferase reporter assay, RT-PCR, immunohistochemistry.	23321675	Here, we report that miR-148a is repressed by hepatitis B virus (HBV) X protein (HBx) to promote cancer growth and metastasis in a mouse model of hepatocellular carcinoma (HCC). Hematopoietic pre-B cell leukemia transcription factor-interacting protein (HPIP) is an important regulator of cancer cell growth. We used miRNA target prediction programs to identify miR-148a as a regulator of HPIP. Expression of miR-148a in hepatoma cells reduced HPIP expression, leading to repression of AKT and ERK and subsequent inhibition of mTOR through the AKT/ERK/FOXO4/ATF5 pathway.
HHID00011165	Hepatitis B virus(HBV)	Mus musculus	Host	miRNA	mmu-mir-152(miR-152)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000174	HepG2, HepG2.2.15 and LO2 cell lines	Downregulation	Host	Protein	Dnmt1(DNMT1)	http://www.ncbi.nlm.nih.gov/gene/13433	Upregulation	-	23108868	miR-152 is frequently downregulated in HBV-HCC mice and the HepG2.2.15 cell line. miR-152 expression is inversely correlated with DNA methyltransferase (DNMT)1 expression in HBV-HCC as well as in HepG2, HepG2.2.15 and LO2 cell lines. Upregulation of DNMT1 as a result of miR-152 downregulation has been observed during HCC development.
HHID00011166	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	has-mir-141(miR-141)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000457	Primary Hepatocyte Coculture	Upregulation	Host	Protein	DLC1(DLC-1)	http://www.ncbi.nlm.nih.gov/gene/10395	Downregulation	RNA Isolation, Array-Based Klenow Enzyme Assay, Statistical Analysis and Reproducibility., Luciferase Reporter Assay, western Blot Analysis of DLC-1 Protein, fluorescein Isothiocyanate, miRNA Detection by Way of RNA-Primed, and Quan-titative PCR, Reverse-Transcription.	20967756	MicroRNA miR-141 that targets DLC-1 was accentuated in cells infected with HCV genotypes 1a, 1b, and 2a. We present several lines of evidence that efficient HCV replication requires miR-141-mediated suppression of DLC-1. An increase in miR-141 correlated with the inhibition of DLC-1 protein in HCV-infected cells.
HHID00011167	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-let-7c(Let-7c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000064	Huh-7 cells,HepG2 cells.	-	Host	Protein	BCL2L1(Bcl-xl)	http://www.ncbi.nlm.nih.gov/gene/598	Downregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	Let-7cand let-7g miRNAs have been shown to regulate Bcl-xl.
HHID00011168	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-let-7g(let-7g)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	Huh-7 cells,HepG2 cells.	-	Host	Protein	BCL2L1(Bcl-xl)	http://www.ncbi.nlm.nih.gov/gene/598	Downregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	Let-7cand let-7g miRNAs have been shown to regulate Bcl-xl.
HHID00011169	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-miR-193b	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003137	Hep-394 cells	Upregulation	Host	Protein	Mcl-1	http://www.ncbi.nlm.nih.gov/gene/4170	Downregulation	Predicted.	20103677	Hepatitis C virus proteins modulate microRNA expression and chemosensitivity in malignant hepatocytes.Of these, miR-193b was over-expressed by 5-fold in Hep-394 cells. miR-193b was predicted to target Mcl-1, an anti-apoptotic protein that can modulate the response to sorafenib. The expression of Mcl-1 expression was decreased and basal caspase-3/7 activity and PARP cleavage were increased in Hep-394 cells compared to controls. Moreover, transfection with precursors to miR-193b decreased both Mcl-1 expression and the IC50 to sorafenib.
HHID00011170	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-1-1(miR-1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000651	-	Upregulation	Host	Protein	FOXP1(FoxP1)	http://www.ncbi.nlm.nih.gov/gene/27086	Downregulation	Western Blot Analysis, luciferase Reporter assay.	23108868	Therapeutic intervention with hypomethylating agents could inhibit HCC cell growth by increasing miR-1-1 expression to inhibit expression of its two downstream oncogenes, MET(MNNG HOS transforming gene) and FoxP1(Forkhead box protein P1).
HHID00011171	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-1-1(miR-1-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000651	-	Upregulation	Host	Protein	MET	http://www.ncbi.nlm.nih.gov/gene/4233	Downregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	Therapeuticintervention with hypomethylating agents could inhibit HCC cell growth by increasing miR-1-1 expression to inhibit expression of its two downstream oncogenes, MET(MNNG HOS transforming gene) and FoxP1(Forkhead box protein P1).
HHID00011172	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-122	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	Huh-7	Downregulation	Host	Protein	HO-1	http://www.ncbi.nlm.nih.gov/gene/3162	Upregulation	Quantitative RT-PCR, Statistical analyses, Western Blot.	17919492	Down-regulation of HCV replication using an antagomir targeted to miR-122 is effective, specific, and selective. Increasing HO-1, by silencing the Bach1 gene or by treatment with cobalt protoporphyrin or heme, decreases HCV replication. Thus, miR-122 plays an important role in the regulation of HCV replication and HO-1/Bach1 expression in hepatocytes. Down-regulation of miR-122 and up-regulation of HO-1 may be new strategies for anti-HCV intervention and cytoprotection.
HHID00011173	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	-	-	Host	Protein	CCNT1(Cyclin T1)	http://www.ncbi.nlm.nih.gov/gene/904	-	Real-time quantitative polymerase chain reaction, Western blotting, electrophoretic mobility shift assay, and confocal microscopy were used for experimental analysis.	23126531	We show for the first time that Cyclin G1, a miR-122 target gene, has regulatory effects on HCV replication and that alcohol increases HCV replication by regulating miR-122 and Cyclin G1.
HHID00011174	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	-	Downregulation	Host	Protein	IFNbeta	http://www.ncbi.nlm.nih.gov/gene/3456	-	RNA extraction, miRNA array analysis, Real-time PCR.	17943132	In addition, we demonstrate that IFNbeta treatment leads to a significant reduction in the expression of the liver-specific miR-122, an miRNA that has been previously shown to be essential for HCV replication.
HHID00011175	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	HCV J6/JFH1 infected Huh7.5 cells	Upregulation	Host	Protein	HSP90AA1	http://www.ncbi.nlm.nih.gov/gene/3320	-	Real Time Reverse Transcription Polymerase Chain Reaction.	22898980	Overexpression of GW182 significantly increased HCV RNA and protein expression in HCV J6/JFH1 infected Huh7.5 cells. Furthermore, GW182 colocalized and coimmunoprecipitated with heat shock protein 90 (HSP90), which increased upon alcohol exposure with and without HCV infection and enhanced HCV gene expression. The use of an HSP90 inhibitor or knockdown of HSP90 decreased GW182 and miR-122 expression and significantly reduced HCV replication.
HHID00011176	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	HCV J6/JFH1 infected Huh7.5 cells	Upregulation	Host	Protein	HSP90AB1	http://www.ncbi.nlm.nih.gov/gene/3326	-	Real Time Reverse Transcription Polymerase Chain Reaction.	22898980	Overexpression of GW182 significantly increased HCV RNA and protein expression in HCV J6/JFH1 infected Huh7.5 cells. Furthermore, GW182 colocalized and coimmunoprecipitated with heat shock protein 90 (HSP90), which increased upon alcohol exposure with and without HCV infection and enhanced HCV gene expression. The use of an HSP90 inhibitor or knockdown of HSP90 decreased GW182 and miR-122 expression and significantly reduced HCV replication.
HHID00011177	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	HCV J6/JFH1 infected Huh7.5 cells	Upregulation	Host	Protein	HSP90B1	http://www.ncbi.nlm.nih.gov/gene/7184	-	Real Time Reverse Transcription Polymerase Chain Reaction.	22898980	Overexpression of GW182 significantly increased HCV RNA and protein expression in HCV J6/JFH1 infected Huh7.5 cells. Furthermore, GW182 colocalized and coimmunoprecipitated with heat shock protein 90 (HSP90), which increased upon alcohol exposure with and without HCV infection and enhanced HCV gene expression. The use of an HSP90 inhibitor or knockdown of HSP90 decreased GW182 and miR-122 expression and significantly reduced HCV replication.
HHID00011178	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	HepG2.2.15	-	Host	Protein	CCND1(cyclin G1)	http://www.ncbi.nlm.nih.gov/gene/595	Downregulation	HBsAg and HBeAg assay, Cell viability assay, Western blot analysis, Cell transfection, qPCR, RT-PCR.	21725618	However, recent evidence shows that miR-122 decreases HBV replication through the inhibitory effect of p53 on HBV transcription, and consequently it acts as a tumor-suppressor through both a decrease in HBV replication and by directly targeting cyclin G1, as well as Wnt/beta-catenin, and NDRG3 pathways.
HHID00011179	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	HepG2.2.15	-	Host	Protein	CTNNBIP1(beta-catenin)	http://www.ncbi.nlm.nih.gov/gene/56998	Downregulation	HBsAg and HBeAg assay, Cell viability assay, Western blot analysis, Cell transfection, qPCR, RT-PCR.	21725618	However, recent evidence shows that miR-122 decreases HBV replication through the inhibitory effect of p53 on HBV transcription, and consequently it acts as a tumor-suppressor through both a decrease in HBV replication and by directly targeting cyclin G1, as well as Wnt/beta-catenin, and NDRG3 pathways.
HHID00011180	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	HepG2.2.15	-	Host	Protein	NDRG3	http://www.ncbi.nlm.nih.gov/gene/57446	Downregulation	HBsAg and HBeAg assay, Cell viability assay, Western blot analysis, Cell transfection, qPCR, RT-PCR.	21725618	However, recent evidence shows that miR-122 decreases HBV replication through the inhibitory effect of p53 on HBV transcription, and consequently it acts as a tumor-suppressor through both a decrease in HBV replication and by directly targeting cyclin G1, as well as Wnt/beta-catenin, and NDRG3 pathways.
HHID00011181	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	HepG2.2.15	-	Host	Protein	TP53(p53)	http://www.ncbi.nlm.nih.gov/gene/7157	Downregulation	HBsAg and HBeAg assay, Cell viability assay, Western blot analysis, Cell transfection, qPCR, RT-PCR.	21725618	However, recent evidence shows that miR-122 decreases HBV replication through the inhibitory effect of p53 on HBV transcription, and consequently it acts as a tumor-suppressor through both a decrease in HBV replication and by directly targeting cyclin G1, as well as Wnt/beta-catenin, and NDRG3 pathways.
HHID00011182	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	Liver	-	Host	Protein	Ago2	http://www.ncbi.nlm.nih.gov/gene/27161	-	Immunoprecipitations, reporter assays, RNA decay assay, western blots.	23405269	MicroRNA-122 dependent binding of Ago2 protein to hepatitis C virus RNA is associated with enhanced RNA stability and translation stimulation. Here,we show that Argonaute(Ago) 2 protein binds to the HCV 5'-UTR in a miR-122-dependent manner, whereas the HCV 3'-UTR does not bind Ago2.
HHID00011183	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	Liver cells	-	Host	Protein	TP53(P53)	http://www.ncbi.nlm.nih.gov/gene/7157	Downregulation	And electrophoretic mobility shift assay, a luciferase reporter system, coimmunoprecipitation.	22105316	Using coimmunoprecipitation, a luciferase reporter system, and electrophoretic mobility shift assay, we further demonstrated that cyclin G(1) specifically interacted with p53, and this interaction blocked the specific binding of p53 to HBV enhancer elements and simultaneously abrogated p53-mediated inhibition of HBV transcription. Finally, we show that miR-122 suppressed HBV replication in p53 wildtype cells but not in null isogenic cells.
HHID00011184	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-130a(miR-130a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000448	Hepatocytes and liver biopsy	Upregulation	Host	Protein	IFITM1	http://www.ncbi.nlm.nih.gov/gene/8519	Downregulation	Knockdown.	22787204	Introduction of anti-miR-130a in hepatocytes increased IFITM1 expression. Hepatocytes stably expressing IFITM1 reduced HCV replication. Together, these results suggested that HCV infection of hepatocytes upregulates miR-130a and that use of anti-miR-130a may have potential for restriction of HCV replication.
HHID00011185	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-130a(miR-130a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000448	Huh7.5 cells	Downregulation	Host	mRNA	C-Met	http://www.ncbi.nlm.nih.gov/gene/4233	Downregulation	Predicted.	23418453	Seven miRNAs (miR-30b, miR-30c, miR-130a, miR-192, miR-301, miR-324-5p, and miR-565) were down-regulated in HCV-infected Huh7.5 cells (p<0.05) and subsequently up-regulated following interferon-alpha treatment.Our data suggests that, in addition to possible antitumor effects, treatment of HCV-infected Huh7.5 cells with IFN-α upregulates miR-130a/301 thereby reducing c-Met expression and HCV pathogenesis.
HHID00011186	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-141(miR-141)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000457	-	-	Host	Protein	DLC1(DLC-1)	http://www.ncbi.nlm.nih.gov/gene/10395	Downregulation	Luciferase Reporter Assay.	23108868	Anincrease in miR-141 is often associated with decreased expression of DLC-1(deleted in liver cancer 1), a tumor suppressor gene frequently deleted in HCC and other solid human tumors [67]. HCV-infected hepatocytes show enhanced proliferation that could be mitigated by overexpression of DLC-1, indicating that miR-141 might also promote HCV-induced tumorigenesis.
HHID00011187	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-141(miR-141)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000457	Liver cells	Upregulation	Host	Protein	DLC1(DLC-1)	http://www.ncbi.nlm.nih.gov/gene/10395	Downregulation	Array-Based Klenow Enzyme Assay, MiRNA Detection by RNA-Primed, luciferase Reporter Assay.	22359297	An increase in miR-141 correlated with the inhibition of DLC-1 protein in HCV-infected cells.
HHID00011188	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-152(miR-152)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000462	-	Downregulation	Host	Protein	DNMT1	http://www.ncbi.nlm.nih.gov/gene/1786	Upregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	Upregulationof DNMT1 as a result of miR-152 downregulation has been observed during HCC development. miR-152 may participate in HBV-induced epigenetic modifications through DNMT1.
HHID00011189	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-16-1(miR-16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000070	-	-	Host	Protein	BCL2(Bcl-2)	http://www.ncbi.nlm.nih.gov/gene/596	Downregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	Bcl-2 has also been identified as a target of miR-16.
HHID00011190	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-16-2(miR-16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000115	-	-	Host	Protein	BCL2(Bcl-2)	http://www.ncbi.nlm.nih.gov/gene/596	Downregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	Bcl-2 has also been identified as a target of miR-16.
HHID00011191	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-193b(miR-193b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003137	HepG2 cells	Upregulation	Host	Protein	MCL1(Mcl-1)	http://www.ncbi.nlm.nih.gov/gene/4170	-	Predicted.	22425745	Of those, miR-193b whose expression was upregulated by 5-fold in HCV-transfected HepG2 cells was predicted to target Mcl-1, an anti-apoptotic protein affecting the response of HCC to sorafenib.
HHID00011192	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-196a(miR-196)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000238	Huh-7.5	-	Host	Protein	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	Downregulation	Quantitative RT-PCR, Statistical Analysis, Western Blots, Transfection and Luciferase Activity Assays.	20127796	MicroRNA-196 represses Bach1 protein and hepatitis C virus gene expression in human hepatoma cells expressing hepatitis C viral proteins. miR-196 directly acts on the 3'-UTR of Bach1 messenger RNA and translationally represses the expression of this protein, and up-regulates HMOX1.
HHID00011193	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-196a(miR-196)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000238	Huh-7.5	-	Host	Protein	HMOX1	http://www.ncbi.nlm.nih.gov/gene/3162	Upregulation	Quantitative RT-PCR, Statistical Analysis, Western Blots, Transfection and Luciferase Activity Assays.	20127796	MicroRNA-196 represses Bach1 protein and hepatitis C virus gene expression in human hepatoma cells expressing hepatitis C viral proteins. miR-196 directly acts on the 3'-UTR of Bach1 messenger RNA and translationally represses the expression of this protein, and up-regulates HMOX1.
HHID00011194	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-196a-1(miR-196)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000238	Hepatoma 9-13 cells	-	Host	Protein	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	Downregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	miR-196 induction downregulates Bach1 and upregulates HMOX1 in human hepatoma 9-13 cells. Therefore, miR-196 plays a protective role in HCV-HCC by directly targeting HCV genomes or indirectly regulating Bach1 and HMOX1 expression/function.
HHID00011195	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-196a-1(miR-196)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000238	Hepatoma 9-13 cells	-	Host	Protein	HMOX1	http://www.ncbi.nlm.nih.gov/gene/3162	Upregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	miR-196 induction downregulates Bach1 and upregulates HMOX1 in human hepatoma 9-13 cells. Therefore, miR-196 plays a protective role in HCV-HCC by directly targeting HCV genomes or indirectly regulating Bach1 and HMOX1 expression/function.
HHID00011196	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-196a-2(miR-196)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000279	Hepatoma 9-13 cells	-	Host	Protein	BACH1(Bach1)	http://www.ncbi.nlm.nih.gov/gene/571	Downregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	miR-196 induction downregulates Bach1 and upregulates HMOX1 in human hepatoma 9-13 cells. Therefore, miR-196 plays a protective role in HCV-HCC by directly targeting HCV genomes or indirectly regulating Bach1 and HMOX1 expression/function.
HHID00011197	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-196a-2(miR-196)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000279	Human hepatoma 9-13 cells	-	Host	Protein	HMOX1	http://www.ncbi.nlm.nih.gov/gene/3162	Upregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	miR-196 induction downregulates Bach1 and upregulates HMOX1 in human hepatoma 9-13 cells. Therefore, miR-196 plays a protective role in HCV-HCC by directly targeting HCV genomes or indirectly regulating Bach1 and HMOX1 expression/function.
HHID00011198	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-196b(miR-196)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001150	Huh-7.5	-	Host	Protein	BACH1	http://www.ncbi.nlm.nih.gov/gene/571	Downregulation	Quantitative RT-PCR, Statistical Analysis, Western Blots, Luciferase Activity Assays.	20127796	MicroRNA-196 represses Bach1 protein and hepatitis C virus gene expression in human hepatoma cells expressing hepatitis C viral proteins. miR-196 directly acts on the 3'-UTR of Bach1 messenger RNA and translationally represses the expression of this protein, and up-regulates HMOX1.
HHID00011199	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-196b(miR-196)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001150	Huh-7.5	-	Host	Protein	HMOX1	http://www.ncbi.nlm.nih.gov/gene/3162	Upregulation	Quantitative RT-PCR, Statistical Analysis, Western Blots, Luciferase Activity Assays.	20127796	MicroRNA-196 represses Bach1 protein and hepatitis C virus gene expression in human hepatoma cells expressing hepatitis C viral proteins. miR-196 directly acts on the 3'-UTR of Bach1 messenger RNA and translationally represses the expression of this protein, and up-regulates HMOX1.
HHID00011200	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-221(miR-221)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000298	-	-	Host	Protein	CDKN1B(p27/Kip1)	http://www.ncbi.nlm.nih.gov/gene/1027	-	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	miR-222,a homolog of miR-221, controls CDKN1B/p27/Kip1(kinase inhibitor protein) .
HHID00011201	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-222(miR-222)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000299	-	-	Host	Protein	CDKN1B(p27/Kip1)	http://www.ncbi.nlm.nih.gov/gene/1027	-	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	miR-222,a homolog of miR-221, controls CDKN1B/p27/Kip1(kinase inhibitor protein) .
HHID00011202	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-223(miR-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000300	liver	Downregulation	Host	Protein	STMN1	http://www.ncbi.nlm.nih.gov/gene/3925	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011203	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-224(miR-224)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000301	liver	Upregulation	Host	Protein	API5(API-5)	http://www.ncbi.nlm.nih.gov/gene/8539	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011204	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-224(miR-224)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000301	liver	Upregulation	Host	Protein	MMP9	http://www.ncbi.nlm.nih.gov/gene/4318	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011205	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-224(miR-224)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000301	liver	Upregulation	Host	Protein	PAK4	http://www.ncbi.nlm.nih.gov/gene/10298	-	-	23108868	To date, 132 miRNAs(out of 1527 identified in the human genome) have been linked to HCC(Table 1). Some of them are of clinical significance, and are valuable in diagnosing or predicting the prognosis of HCC. These miRNAs could be major factors and used for identification and classification of liver cancer. Chronic hepatitis B virus(HBV) and/or hepatitis C virus(HCV) infections resulting in hepatic fibrosis and cirrhosis are the major risk factors for HCC.Table 1 Deregulated miRNAs in HCC.
HHID00011206	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-27a(miR-27a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000085	human hepatoma cells	Upregulation	Host	Protein	RXRalpha	http://www.ncbi.nlm.nih.gov/gene/6256	-	Luciferase assays.	23449803	Gene expression profiling of Huh-7.5 cells showed that miR-27a regulates lipid metabolism by targeting the lipid synthetic transcription factor RXRalpha and the lipid transporter ATP-binding cassette subfamily A member 1. Interestingly, the expression of miR-27a was upregulated by HCV infection and lipid overload through the adipocyte differentiation transcription factor C/EBPalpha. In turn, upregulated miR-27a repressed HCV infection and lipid storage in cells. Thus, this negative feedback mechanism might contribute to the maintenance of a low viral load and would be beneficial to the Virus by allowing it to escape host immune surveillance and establish a persistent chronic HCV infection.
HHID00011207	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	LX-2 cells	Upregulation	Host	Protein	COL6A1(Collagen)	http://www.ncbi.nlm.nih.gov/gene/1291	Downregulation	Multiplex RT and TaqMan miRNA Assays.	21606534	Hepatitis C virus infection and hepatic stellate cell activation downregulate miR-29: miR-29 overexpression reduces hepatitis C viral abundance in culture. miR-29 overexpression in LX-2 cells decreased collagen expression and modestly decreased proliferation.
HHID00011208	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-29b(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000105	LX-2 cells	Upregulation	Host	Protein	COL6A1(Collagen)	http://www.ncbi.nlm.nih.gov/gene/1291	Downregulation	Multiplex RT and TaqMan miRNA Assays.	21606534	Hepatitis C virus infection and hepatic stellate cell activation downregulate miR-29: miR-29 overexpression reduces hepatitis C viral abundance in culture. miR-29 overexpression in LX-2 cells decreased collagen expression and modestly decreased proliferation.
HHID00011209	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-29c(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	LX-2 cells	Upregulation	Host	Protein	COL6A1(Collagen)	http://www.ncbi.nlm.nih.gov/gene/1291	Downregulation	Multiplex RT and TaqMan miRNA Assays.	21606534	Hepatitis C virus infection and hepatic stellate cell activation downregulate miR-29: miR-29 overexpression reduces hepatitis C viral abundance in culture. miR-29 overexpression in LX-2 cells decreased collagen expression and modestly decreased proliferation.
HHID00011210	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-301(miR-301)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000745	Huh7.5 cells	Downregulation	Host	mRNA	C-Met	http://www.ncbi.nlm.nih.gov/gene/4233	Downregulation	Predicted.	23418453	Seven miRNAs (miR-30b, miR-30c, miR-130a, miR-192, miR-301, miR-324-5p, and miR-565) were down-regulated in HCV-infected Huh7.5 cells (p<0.05) and subsequently up-regulated following interferon-alpha treatment.Our data suggests that, in addition to possible antitumor effects, treatment of HCV-infected Huh7.5 cells with IFN-α upregulates miR-130a/301 thereby reducing c-Met expression and HCV pathogenesis.
HHID00011211	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-320c(miR-320c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003778	Serum	Upregulation	Host	Protein	ADAMTS5	http://www.ncbi.nlm.nih.gov/gene/11096	-	miRecords, microarray hybridization, microRNA array.	23549102	Serum miR-134, miR-320c and miR-483-5p were significantly upregulated during HCV infection. miR-320c and miR-483-5p were also upregulated in HCV- JFH1 infected cells and cell culture supernatant. ADAMTS5,a regulator of cell invasion is also a known target of miR-320c.
HHID00011212	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-345(miR-345)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000825	Hepatoma cells	Upregulation	Host	Protein	P21	http://www.ncbi.nlm.nih.gov/gene/644914	Downregulation	TaqMan low density array, qPCR.	23577194	HCV core protein enhances the expression of microRNA-345 which then down-regulates p21(Waf1/Cip1) expression. It is the first time that HCV core protein has ever been shown to suppress p21(Waf1/Cip1) gene expression through miR-345 targeting.HCV core-induced microRNA-345 suppressed p21(Waf1/Cip1) gene expression through targeting its 3' untranslated region in human hepatoma cells.
HHID00011213	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-34a(miR-34a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000268	HepG2 cells	-	Host	Protein	CCND1(cyclin D1)	http://www.ncbi.nlm.nih.gov/gene/595	-	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	miR-34a also regulates G1/S transition molecules including cyclin D1, CDK4 and CDK2 in HCC.
HHID00011214	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-34a(miR-34a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000268	HepG2 cells	-	Host	Protein	CDK2	http://www.ncbi.nlm.nih.gov/gene/1017	-	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	miR-34a also regulates G1/S transition molecules including cyclin D1, CDK4 and CDK2 in HCC.
HHID00011215	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-34a(miR-34a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000268	HepG2 cells	-	Host	Protein	CDK4	http://www.ncbi.nlm.nih.gov/gene/1019	-	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	miR-34a also regulates G1/S transition molecules including cyclin D1, CDK4 and CDK2 in HCC.
HHID00011216	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-449a	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001648	-	-	Host	Protein	NOTCH	http://www.ncbi.nlm.nih.gov/gene/4851	-	Luciferase Assay, Western Blot and Immunofluorescence Microscopy.	23226395	Takentogether it is demonstrated that miRNA-449a plays an important role in modulating expression of YKL40 through targeting the components of the NOTCH signaling pathway following HCV infection.
HHID00011217	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-449a	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001648	-	-	Host	Protein	YKL40	http://www.ncbi.nlm.nih.gov/gene/1116	-	Luciferase Assay, Western Blot and Immunofluorescence Microscopy.	23226395	Takentogether it is demonstrated that miRNA-449a plays an important role in modulating expression of YKL40 through targeting the components of the NOTCH signaling pathway following HCV infection.
HHID00011218	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-483-5p(miR-483-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002467	Serum	Upregulation	Host	Protein	ERK1	http://www.ncbi.nlm.nih.gov/gene/5595	-	miRecords, microarray hybridization, microRNA array.	23549102	Serum miR-134, miR-320c and miR-483-5p were significantly upregulated during HCV infection. miR-320c and miR-483-5p were also upregulated in HCV- JFH1 infected cells and cell culture supernatant. In case of miR-483-5p, validated targets included SRF a modulator of VEGF signaling and ERK1 a member of the Ras-ERK intracellular signaling pathway that is modulated by HCV proteins such as NS5A.
HHID00011219	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-483-5p(miR-483-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002467	Serum	Upregulation	Host	Protein	SRF	http://www.ncbi.nlm.nih.gov/gene/6722	-	miRecords, microarray hybridization, microRNA array.	23549102	Serum miR-134, miR-320c and miR-483-5p were significantly upregulated during HCV infection. miR-320c and miR-483-5p were also upregulated in HCV- JFH1 infected cells and cell culture supernatant. In case of miR-483-5p, validated targets included SRF a modulator of VEGF signaling and ERK1 a member of the Ras-ERK intracellular signaling pathway that is modulated by HCV proteins such as NS5A.
HHID00011220	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-491(miR-491)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003126	Huh7	-	Host	Protein	PIK3CA(PI3 kinase)	http://www.ncbi.nlm.nih.gov/gene/5290	Downregulation	miRNA transfection, immunoblot analysis, miRNA array analysis, dual luciferase assay, cell proliferation assay, RT-PCR.	21802413	Under inhibition of PI3 kinase by LY294002, the suppressive effect of miR-491 on HCV replication was abolished, indicating that suppression of HCV replication by miR-491 was dependent on the PI3 kinase/Akt pathway.
HHID00011221	Hepatitis C virus(HCV)	Mus musculus	Host	miRNA	mmu-mir-101a(miR-101)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000148	tissue samples (104 HCC, 90 adjacent cirrhotic livers, 21 normal livers) as well as in 35 HCC cell lines	-	Host	Protein	Mcl1(Mcl-1)	http://www.ncbi.nlm.nih.gov/gene/17210	-	Microarray and Computational Analysis,Quantitative PCR and Western Blot Analysis,premiRs and antagomiRs Transfection,Analysis of Putative miR-221 Targets.	23108868	Two proapoptotic members, Bmf and Bim, are targeted by miR-221 and miR-15, respectively. Three antiapoptotic members, Bcl-2, Mcl-1 and Bcl-w are targets of miR-29, miR-101 and miR-122, respectively.
HHID00011222	Hepatitis C virus(HCV)	Mus musculus	Host	miRNA	mmu-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000256	tissue samples (104 HCC, 90 adjacent cirrhotic livers, 21 normal livers) as well as in 35 HCC cell lines	-	Host	Protein	Bcl2l2(Bcl-w)	http://www.ncbi.nlm.nih.gov/gene/12050	-	Microarray and Computational Analysis,Quantitative PCR and Western Blot Analysis,premiRs and antagomiRs Transfection,Analysis of Putative miR-221 Targets.	23108868	Two proapoptotic members, Bmf and Bim, are targeted by miR-221 and miR-15, respectively. Three antiapoptotic members, Bcl-2, Mcl-1 and Bcl-w are targets of miR-29, miR-101 and miR-122, respectively.
HHID00011223	Hepatitis C virus(HCV)	Mus musculus	Host	miRNA	mmu-mir-15(miR-15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000564	-	-	Host	Protein	Bcl2l11(Bim)	http://www.ncbi.nlm.nih.gov/gene/12125	-	Microarray and Computational Analysis,Quantitative PCR and Western Blot Analysis,premiRs and antagomiRs Transfection,Analysis of Putative miR-221 Targets.	23108868	Two proapoptotic members, Bmf and Bim, are targeted by miR-221 and miR-15, respectively. Three antiapoptotic members, Bcl-2, Mcl-1 and Bcl-w are targets of miR-29, miR-101 and miR-122, respectively.
HHID00011224	Hepatitis C virus(HCV)	Mus musculus	Host	miRNA	mmu-mir-221(miR-221)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000709	-	-	Host	Protein	Bmf	http://www.ncbi.nlm.nih.gov/gene/171543	-	Microarray and Computational Analysis,Quantitative PCR and Western Blot Analysis,premiRs and antagomiRs Transfection,Analysis of Putative miR-221 Targets.	23108868	Two proapoptotic members, Bmf and Bim, are targeted by miR-221 and miR-15, respectively. Three antiapoptotic members, Bcl-2, Mcl-1 and Bcl-w are targets of miR-29, miR-101 and miR-122, respectively.
HHID00011225	Hepatitis C virus(HCV)	Mus musculus	Host	miRNA	mmu-mir-29a(miR-29a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000576	tissue samples (104 HCC, 90 adjacent cirrhotic livers, 21 normal livers) as well as in 35 HCC cell lines	-	Host	Protein	Bcl2(Bcl-2)	http://www.ncbi.nlm.nih.gov/gene/12043	-	Microarray and Computational Analysis,Quantitative PCR and Western Blot Analysis,premiRs and antagomiRs Transfection,Analysis of Putative miR-221 Targets.	23108868	Two proapoptotic members, Bmf and Bim, are targeted by miR-221 and miR-15, respectively. Three antiapoptotic members, Bcl-2, Mcl-1 and Bcl-w are targets of miR-29, miR-101 and miR-122, respectively.
HHID00011226	Hepatitis C virus(HCV)	Rattus norvegicus	Host	miRNA	rno-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000891	cultured rat cells	-	Host	Protein	Slc7a1(CAT-1)	http://www.ncbi.nlm.nih.gov/gene/25648	Downregulation	Mutational analyses.	17381319	CAT-1 activity is absent in the quiescent liver, but it is increased in primary or transformed hepatocytes.Incontrast, interaction of miR-122 with the 3'-noncoding region(3'NCR) of the cellularmRNA encoding the cationic amino acid transporter CAT-1 resulted in the down-regulation of CAT-1 protein abundance.
HHID00011227	Hepatitis E virus(HEV)	Sus scrofa	Host	miRNA	ssc-mir-221(miR-221)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0008221	HEK 293 cells	-	Host	Protein	CDKN1B(P27kip1)	http://www.ncbi.nlm.nih.gov/gene/397584	-	QRT-PCR, Luciferase reporter assay, Western blot.	23579640	Identification of miR-221 and -222 as important regulators in genotype IV swine hepatitis E virus ORF3-expressing HEK 293 cells. We found a significant down-regulation of miR-221 and -222 in ORF3 expressing human embryonic kidney 293 cell line. Among the 116 candidate targets genes of miR-221 and -222 that we detected in silico, we demonstrated that the expression of the cyclin-dependent kinase inhibitor 1B, also named p27(kip1), was directly regulated by these miRNAs.
HHID00011228	Hepatitis E virus(HEV)	Sus scrofa	Host	miRNA	ssc-mir-222(miR-222)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0013151	HEK 293 cells	-	Host	Protein	CDKN1B(P27kip1)	http://www.ncbi.nlm.nih.gov/gene/397584	-	QRT-PCR, Luciferase reporter assay, Western blot.	23579640	Identification of miR-221 and -222 as important regulators in genotype IV swine hepatitis E virus ORF3-expressing HEK 293 cells. We found a significant down-regulation of miR-221 and -222 in ORF3 expressing human embryonic kidney 293 cell line. Among the 116 candidate targets genes of miR-221 and -222 that we detected in silico, we demonstrated that the expression of the cyclin-dependent kinase inhibitor 1B, also named p27(kip1), was directly regulated by these miRNAs.
HHID00011229	Herpes simplex virus 1(HSV-1)	Homo sapiens	Host	LncRNA	NEAT1	http://lncrnadb.com/Detail.aspx?TKeyID=105	-	-	Host	Protein	CXCL8(IL8)	http://www.ncbi.nlm.nih.gov/gene/3576	Upregulation	-	24507715	Here we show that nuclear enriched abundant transcript 1 (NEAT1), an essential LncRNA for the formation of nuclear body paraspeckles, is induced by influenza virus and herpes simplex virus infection as well as by Toll-like receptor3-p38 pathway-triggered poly I:C stimulation, resulting in excess formation of paraspeckles.We found that NEAT1 facilitates the expression of antiviral genes including cytokines such as interleukin-8 (IL8).
HHID00011230	Herpes simplex virus 1(HSV-1)	Homo sapiens	Host	LncRNA	NEAT1	http://lncrnadb.com/Detail.aspx?TKeyID=105	-	-	Host	Protein	SFPQ	http://www.ncbi.nlm.nih.gov/gene/6421	-	-	24507715	Here we show that nuclear enriched abundant transcript 1 (NEAT1), an essential LncRNA for the formation of nuclear body paraspeckles, is induced by influenza virus and herpes simplex virus infection as well as by Toll-like receptor3-p38 pathway-triggered poly I:C stimulation, resulting in excess formation of paraspeckles.We found that splicing factor proline/glutamine-rich (SFPQ), a NEAT1-binding paraspeckle protein, is a repressor of IL8 transcription, and that NEAT1 induction relocates SFPQ from the IL8 promoter to the paraspeckles, leading to transcriptional activation of IL8.
HHID00011231	Human T-cell leukemia virus 1(HTLV-1)	Homo sapiens	Host	miRNA	hsa-mir-130b(miR-130b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000748	human T-cell lines	Upregulation	Host	Protein	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	-	Reporter assays, TUNEL assay, RAKE analysis, Cell proliferation assay, Quantitative real-time PCR, microarray.	18974142	Here, we profiled miRNA expression in HTLV-1-transformed human T-cell lines and primary peripheral blood mononuclear cells from adult T-cell leukemia patients. Analyses of 11 different profiles revealed six miRNAs that were consistently up-regulated. Two of the up-regulated miRNAs (miR-93 and miR-130b) target the 3' untranslated region (3'UTR) of the mRNA for a tumor suppressor protein, tumor protein 53-induced nuclear protein 1 (TP53INP1). .
HHID00011232	Human T-cell leukemia virus 1(HTLV-1)	Homo sapiens	Host	miRNA	hsa-mir-31	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000089	-	Downregulation	Host	Protein	MAP3K14(NIK)	http://www.ncbi.nlm.nih.gov/gene/9020	Upregulation	RT-PCR.	23189820	Some studies have demonstrated that some deregulations of miRNA are involved in the pathogenesis of HTLV-1. Furthermore, global analyses of ATL patient samples have provided a conceptual progress that Polycomb family induces miR-31 silencing, resulting in overexpression of NF-kappaB inducing kinase(NIK) following NF-kappaB activation.
HHID00011233	Human T-cell leukemia virus 1(HTLV-1)	Homo sapiens	Host	miRNA	hsa-mir-93(miR-93)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000095	human T-cell lines	Upregulation	Host	Protein	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	-	Reporter assays, TUNEL assay, RAKE analysis, Cell proliferation assay, Quantitative real-time PCR, microarray.	18974142	Here, we profiled miRNA expression in HTLV-1-transformed human T-cell lines and primary peripheral blood mononuclear cells from adult T-cell leukemia patients. Analyses of 11 different profiles revealed six miRNAs that were consistently up-regulated. Two of the up-regulated miRNAs (miR-93 and miR-130b) target the 3' untranslated region (3'UTR) of the mRNA for a tumor suppressor protein, tumor protein 53-induced nuclear protein 1 (TP53INP1). .
HHID00011234	Human cytomegalovirus(HCMV)	Homo sapiens	Host	miRNA	hsa-mir-100(miR-100)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000102	MRC-5, HeLa, and 293T cells.	-	Host	Protein	MTOR(mTOR)	http://www.ncbi.nlm.nih.gov/gene/2475	Downregulation	QRT-PCR, HCMV growth in the presence of miR-100 and miR-101 mimics, miRNA target verification, miRNA microarray, Statistical analysis, miRNA data analysis, Immunoblot analyses.	18596100	Human cytomegalovirus infection alters the expression of cellular microRNA species that affect its replication.miRNAs miR-100 and miR-101 were chosen for further analyses based on their reproducible changes in expression after infection and on the basis of having predicted targets in the 3' untranslated regions (3'-UTR) of genes encoding components of the mammalian target of rapamycin (mTOR) pathway, which is important during HCMV infection. Together,miR-100 and miR-101 reduced mTOR protein levels.
HHID00011235	Human cytomegalovirus(HCMV)	Homo sapiens	Host	miRNA	hsa-mir-101(miR-101)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000103	MRC-5, HeLa, and 293T cells.	-	Host	Protein	MTOR(mTOR)	http://www.ncbi.nlm.nih.gov/gene/2475	Downregulation	QRT-PCR, HCMV growth in the presence of miR-100 and miR-101 mimics, miRNA target verification, miRNA microarray, Statistical analysis, miRNA data analysis, Immunoblot analyses.	18596100	Human cytomegalovirus infection alters the expression of cellular microRNA species that affect its replication.miRNAs miR-100 and miR-101 were chosen for further analyses based on their reproducible changes in expression after infection and on the basis of having predicted targets in the 3' untranslated regions (3'-UTR) of genes encoding components of the mammalian target of rapamycin (mTOR) pathway, which is important during HCMV infection. Together,miR-100 and miR-101 reduced mTOR protein levels.
HHID00011236	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	LncRNA	7SL	#	-	-	Host	Protein	APOBEC3F(A3F)	http://www.ncbi.nlm.nih.gov/gene/200316	-	-	18067920	In this study, we demonstrate that A3F specifically interacts with cellular signal recognition particle(SRP) RNA(7SL RNA), which is selectively packaged into HIV-1 virions.
HHID00011237	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	LncRNA	7SL	#	-	-	Host	Protein	APOBEC3G(A3G)	http://www.ncbi.nlm.nih.gov/gene/60489	-	RNase protection assay.Immunoblot analysis, Quantitative real-time PCR (qRT-PCR), Immunoprecipitation.	17881443	We demonstrate here that A3G selectively interacts with certain polymerase III(Pol III)-derived RNAs, including Y3 and 7SL RNAs. Among A3G-binding Pol III-derived RNAs, 7SL RNA was preferentially packaged into human immunodeficiency virus type 1(HIV-1) particles.
HHID00011238	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	LncRNA	7SL	#	293T cells	Downregulation	Host	Protein	APOBEC3G(A3G)	http://www.ncbi.nlm.nih.gov/gene/60489	Downregulation	Cell culture, transfections, viral infectivity(MAGI) assays and antibodies Immunoprecipitation and immunoblot analysis qRT-PCR.	22859935	Like A3G, A3H HapII also demonstrated high binding affinity to host small RNAs such as 7SL and Y RNAs. Mutation of a critical amino acid, W115A resulted in reduced expression level, decreased affinity for 7SL RNA, impairment of virion packaging and reduced anti-viral activity. .
HHID00011239	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	LncRNA	7SL	#	293T cells	Downregulation	Host	Protein	APOBEC3H(A3H)	http://www.ncbi.nlm.nih.gov/gene/164668	Downregulation	Cell culture, transfections, viral infectivity(MAGI) assays and antibodies Immunoprecipitation and immunoblot analysis qRT-PCR.	22859935	Like A3G, A3H HapII also demonstrated high binding affinity to host small RNAs such as 7SL and Y RNAs. Mutation of a critical amino acid, W115A resulted in reduced expression level, decreased affinity for 7SL RNA, impairment of virion packaging and reduced anti-viral activity.
HHID00011240	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	LncRNA	NEAT1	http://lncrnadb.com/Detail.aspx?TKeyID=105	-	Upregulation	Host	Protein	PSF	http://www.ncbi.nlm.nih.gov/gene/6421	Upregulation	LncRNA profiling, Western blotting, qRT-PCR, Immunofluorescence and confocal microscopy.	23362321	Because several cellular proteins that play roles in HIV-1 replication are found in paraspeckles(e.g., PSF, p54nrb, and matrin 3 [The following popper user interface control may not be accessible. Tab to the next button to revert the control to an accessible version.Destroy user interface control43?The following popper user interface control may not be accessible. Tab to the next button to revert the control to an accessible version.Destroy user interface control45]), we were moved to investigate NEAT1 interaction with HIV-1.we therefore checked to see how our knockdown of NEAT1 affected the number of paraspeckles in cells. PSF and PSP1 are known protein components of paraspeckles These results, consistent with findings from others(42), support that NEAT1 lncRNA composes an important scaffolding function for paraspeckles.
HHID00011241	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	LncRNA	NEAT1	http://lncrnadb.com/Detail.aspx?TKeyID=105	-	Upregulation	Host	Protein	PSPC1(PSP1)	http://www.ncbi.nlm.nih.gov/gene/55269	Upregulation	LncRNA profiling, Western blotting, qRT-PCR, Immunofluorescence and confocal microscopy.	23362321	Because several cellular proteins that play roles in HIV-1 replication are found in paraspeckles(e.g., PSF, p54nrb, and matrin 3 [The following popper user interface control may not be accessible. Tab to the next button to revert the control to an accessible version.Destroy user interface control43?The following popper user interface control may not be accessible. Tab to the next button to revert the control to an accessible version.Destroy user interface control45]), we were moved to investigate NEAT1 interaction with HIV-1.we therefore checked to see how our knockdown of NEAT1 affected the number of paraspeckles in cells. PSF and PSP1 are known protein components of paraspeckles These results, consistent with findings from others(42), support that NEAT1 lncRNA composes an important scaffolding function for paraspeckles.
HHID00011242	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	LncRNA	Y	#	293T cells	Downregulation	Host	Protein	APOBEC3G(A3G)	http://www.ncbi.nlm.nih.gov/gene/60489	Downregulation	Cell culture, transfections, viral infectivity(MAGI) assays and antibodies Immunoprecipitation and immunoblot analysis qRT-PCR.	22859935	Like A3G, A3H HapII also demonstrated high binding affinity to host small RNAs such as 7SL and Y RNAs. Mutation of a critical amino acid, W115A resulted in reduced expression level, decreased affinity for 7SL RNA, impairment of virion packaging and reduced anti-viral activity. .
HHID00011243	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	LncRNA	Y	#	293T cells	Downregulation	Host	Protein	APOBEC3H(A3H)	http://www.ncbi.nlm.nih.gov/gene/164668	Downregulation	Cell culture, transfections, viral infectivity(MAGI) assays and antibodies Immunoprecipitation and immunoblot analysis qRT-PCR.	22859935	Like A3G, A3H HapII also demonstrated high binding affinity to host small RNAs such as 7SL and Y RNAs. Mutation of a critical amino acid, W115A resulted in reduced expression level, decreased affinity for 7SL RNA, impairment of virion packaging and reduced anti-viral activity.
HHID00011244	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	LncRNA	Y	http://www.lncrnadb.org/Detail.aspx?TKeyID=123	293T cells	Downregulation	Host	Protein	APOBEC3G	http://www.ncbi.nlm.nih.gov/gene/60489	Downregulation	Cell culture, transfections, viral infectivity(MAGI) assays and antibodies Immunoprecipitation and immunoblot analysis qRT-PCR.	22859935	Unique motif RLYY(F/Y)W of APOBEC3G (A3G) and APOBEC3F (A3F) required for 7SL RNA binding and HIV-1 incorporation is also conserved in all A3H variants. Like A3G, A3H HapII also demonstrated high binding affinity to host small RNAs such as 7SL and Y RNAs. Mutation of a critical amino acid, W115A resulted in reduced expression level, decreased affinity for 7SL RNA, impairment of virion packaging and reduced anti-viral activity.
HHID00011245	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	LncRNA	Y	http://www.lncrnadb.org/Detail.aspx?TKeyID=123	293T cells	Downregulation	Host	Protein	APOBEC3H	http://www.ncbi.nlm.nih.gov/gene/164668	Downregulation	Cell culture, viral infectivity(MAGI) assays and antibodies Immunoprecipitation and immunoblot analysisqRT-PCR, transfections.	22859935	Unique motif RLYY(F/Y)W of APOBEC3G (A3G) and APOBEC3F (A3F) required for 7SL RNA binding and HIV-1 incorporation is also conserved in all A3H variants. Like A3G, A3H HapII also demonstrated high binding affinity to host small RNAs such as 7SL and Y RNAs. Mutation of a critical amino acid, W115A resulted in reduced expression level, decreased affinity for 7SL RNA, impairment of virion packaging and reduced anti-viral activity.
HHID00011246	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-17-3p(has-miR-17-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000071	-	-	Host	mRNA	EP300	http://www.ncbi.nlm.nih.gov/gene/2033	Upregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011247	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-17-5p(has-miR-17*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000071	-	-	Host	mRNA	EP300	http://www.ncbi.nlm.nih.gov/gene/2033	Upregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011248	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-198(has-miR-198)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000240	-	-	Host	mRNA	CCNT1	http://www.ncbi.nlm.nih.gov/gene/904	Upregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011249	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-20a(has-miR-20a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000076	-	-	Host	mRNA	CDC42	http://www.ncbi.nlm.nih.gov/gene/998	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011250	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-20a(has-miR-20a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000076	-	-	Host	mRNA	DNMT3A	http://www.ncbi.nlm.nih.gov/gene/1788	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011251	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-20a(has-miR-20a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000076	-	-	Host	mRNA	DNMT3B	http://www.ncbi.nlm.nih.gov/gene/1789	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011252	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-20a(has-miR-20a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000076	-	-	Host	mRNA	KAT8	http://www.ncbi.nlm.nih.gov/gene/84148	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011253	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-20a(has-miR-20a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000076	-	-	Host	mRNA	MCL1	http://www.ncbi.nlm.nih.gov/gene/4170	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011254	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-20a(has-miR-20a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000076	-	-	Host	mRNA	TCL1A	http://www.ncbi.nlm.nih.gov/gene/8115	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011255	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-27a(has-miR-27a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000085	-	-	Host	mRNA	CCNT1	http://www.ncbi.nlm.nih.gov/gene/904	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011256	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-27a-5P(has-miR-27a*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000085	-	-	Host	mRNA	CCNT1	http://www.ncbi.nlm.nih.gov/gene/904	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011257	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-28-3p(has-miR-28-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000086	-	-	Host	mRNA	APOBEC3F	http://www.ncbi.nlm.nih.gov/gene/200316	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011258	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-28-3p(has-miR-28-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000086	-	-	Host	mRNA	APOBEC3G	http://www.ncbi.nlm.nih.gov/gene/60489	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011259	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-28-3p(has-miR-28-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000086	-	-	Host	mRNA	CCR5	http://www.ncbi.nlm.nih.gov/gene/1234	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011260	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-28-3p(has-miR-28-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000086	-	-	Host	mRNA	CD4	http://www.ncbi.nlm.nih.gov/gene/920	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011261	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-28-5p(has-miR-28-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000086	-	-	Host	mRNA	APOBEC3F	http://www.ncbi.nlm.nih.gov/gene/200316	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011262	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-28-5p(has-miR-28-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000086	-	-	Host	mRNA	APOBEC3G	http://www.ncbi.nlm.nih.gov/gene/60489	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011263	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-28-5p(has-miR-28-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000086	-	-	Host	mRNA	CCR5	http://www.ncbi.nlm.nih.gov/gene/1234	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011264	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-28-5p(has-miR-28-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000086	-	-	Host	mRNA	CD4	http://www.ncbi.nlm.nih.gov/gene/920	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011265	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-mir-20a(miR-20a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000076	-	-	Host	Protein	KAT2B(PCAF)	http://www.ncbi.nlm.nih.gov/gene/8850	-	Reporter assay, RNAhybrid.	23043098	Independently,miR-17-5p and miR-20a were found by a separate group to target p300/CBPassociated factor(PCAF), another cellular cofactor of the viral Tat protein.
HHID00011266	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7a(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000060	-	-	Host	mRNA	DICER	http://www.ncbi.nlm.nih.gov/gene/23405	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011267	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7a(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000060	-	-	Host	mRNA	IL-10	http://www.ncbi.nlm.nih.gov/gene/3586	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011268	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7a(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000060	-	-	Host	mRNA	LIN28	http://www.ncbi.nlm.nih.gov/gene/79727	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011269	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7a(let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000060	HUT78 cells	-	Host	mRNA	IL10(IL-10)	http://www.ncbi.nlm.nih.gov/gene/3586	Upregulation	Predicted.	22586040	Our initial in vitro studies demonstrated that HIV-1-infected HUT78 cells expressed significantly higher IL-10 levels compared with uninfected cultures. IL-10 plays an important role in the dysregulated cytotoxic T cell response to HIV-1, and in silico algorithms suggested that let-7 miRNAs target IL10 mRNA.
HHID00011270	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7b(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000063	-	-	Host	mRNA	DICER	http://www.ncbi.nlm.nih.gov/gene/23405	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011271	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7b(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000063	-	-	Host	mRNA	IL-10	http://www.ncbi.nlm.nih.gov/gene/3586	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011272	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7b(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000063	-	-	Host	mRNA	LIN28	http://www.ncbi.nlm.nih.gov/gene/79727	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011273	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7b(let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000063	HUT78 cells	-	Host	mRNA	IL10(IL-10)	http://www.ncbi.nlm.nih.gov/gene/3586	Upregulation	Predicted.	22586040	Our initial in vitro studies demonstrated that HIV-1-infected HUT78 cells expressed significantly higher IL-10 levels compared with uninfected cultures. IL-10 plays an important role in the dysregulated cytotoxic T cell response to HIV-1, and in silico algorithms suggested that let-7 miRNAs target IL10 mRNA.
HHID00011274	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7c(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000064	-	-	Host	mRNA	DICER	http://www.ncbi.nlm.nih.gov/gene/23405	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011275	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7c(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000064	-	-	Host	mRNA	IL-10	http://www.ncbi.nlm.nih.gov/gene/3586	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011276	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7c(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000064	-	-	Host	mRNA	LIN28	http://www.ncbi.nlm.nih.gov/gene/79727	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011277	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7c(let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000064	HUT78 cells	-	Host	mRNA	IL10(IL-10)	http://www.ncbi.nlm.nih.gov/gene/3586	Upregulation	Predicted.	22586040	Our initial in vitro studies demonstrated that HIV-1-infected HUT78 cells expressed significantly higher IL-10 levels compared with uninfected cultures. IL-10 plays an important role in the dysregulated cytotoxic T cell response to HIV-1, and in silico algorithms suggested that let-7 miRNAs target IL10 mRNA.
HHID00011278	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7d(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000065	-	-	Host	mRNA	DICER	http://www.ncbi.nlm.nih.gov/gene/23405	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011279	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7d(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000065	-	-	Host	mRNA	IL-10	http://www.ncbi.nlm.nih.gov/gene/3586	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011280	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7d(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000065	-	-	Host	mRNA	LIN28	http://www.ncbi.nlm.nih.gov/gene/79727	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011281	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7d(let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000065	HUT78 cells	-	Host	mRNA	IL10(IL-10)	http://www.ncbi.nlm.nih.gov/gene/3586	Upregulation	Predicted.	22586040	Our initial in vitro studies demonstrated that HIV-1-infected HUT78 cells expressed significantly higher IL-10 levels compared with uninfected cultures. IL-10 plays an important role in the dysregulated cytotoxic T cell response to HIV-1, and in silico algorithms suggested that let-7 miRNAs target IL10 mRNA.
HHID00011282	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7e(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000066	-	-	Host	mRNA	DICER	http://www.ncbi.nlm.nih.gov/gene/23405	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011283	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7e(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000066	-	-	Host	mRNA	IL-10	http://www.ncbi.nlm.nih.gov/gene/3586	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011284	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7e(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000066	-	-	Host	mRNA	LIN28	http://www.ncbi.nlm.nih.gov/gene/79727	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011285	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7e(let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000066	HUT78 cells	-	Host	mRNA	IL10(IL-10)	http://www.ncbi.nlm.nih.gov/gene/3586	Upregulation	Predicted.	22586040	Our initial in vitro studies demonstrated that HIV-1-infected HUT78 cells expressed significantly higher IL-10 levels compared with uninfected cultures. IL-10 plays an important role in the dysregulated cytotoxic T cell response to HIV-1, and in silico algorithms suggested that let-7 miRNAs target IL10 mRNA.
HHID00011286	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7f(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000067	-	-	Host	mRNA	DICER	http://www.ncbi.nlm.nih.gov/gene/23405	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011287	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7f(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000067	-	-	Host	mRNA	IL-10	http://www.ncbi.nlm.nih.gov/gene/3586	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011288	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7f(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000067	-	-	Host	mRNA	LIN28	http://www.ncbi.nlm.nih.gov/gene/79727	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011289	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7f(let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000067	HUT78 cells	-	Host	mRNA	IL10(IL-10)	http://www.ncbi.nlm.nih.gov/gene/3586	Upregulation	Predicted.	22586040	Our initial in vitro studies demonstrated that HIV-1-infected HUT78 cells expressed significantly higher IL-10 levels compared with uninfected cultures. IL-10 plays an important role in the dysregulated cytotoxic T cell response to HIV-1, and in silico algorithms suggested that let-7 miRNAs target IL10 mRNA.
HHID00011290	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7g(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	-	-	Host	mRNA	DICER	http://www.ncbi.nlm.nih.gov/gene/23405	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011291	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7g(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	-	-	Host	mRNA	IL-10	http://www.ncbi.nlm.nih.gov/gene/3586	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011292	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7g(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	-	-	Host	mRNA	LIN28	http://www.ncbi.nlm.nih.gov/gene/79727	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011293	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7g(let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	HUT78 cells	-	Host	mRNA	IL10(IL-10)	http://www.ncbi.nlm.nih.gov/gene/3586	Upregulation	Predicted.	22586040	Our initial in vitro studies demonstrated that HIV-1-infected HUT78 cells expressed significantly higher IL-10 levels compared with uninfected cultures. IL-10 plays an important role in the dysregulated cytotoxic T cell response to HIV-1, and in silico algorithms suggested that let-7 miRNAs target IL10 mRNA.
HHID00011294	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7g-3p(hsa-let-7g*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	-	-	Host	mRNA	DICER	http://www.ncbi.nlm.nih.gov/gene/23405	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011295	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7g-3p(hsa-let-7g*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	-	-	Host	mRNA	IL-10	http://www.ncbi.nlm.nih.gov/gene/3586	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011296	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7g-3p(hsa-let-7g*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	-	-	Host	mRNA	LIN28	http://www.ncbi.nlm.nih.gov/gene/79727	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011297	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7i(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000434	-	-	Host	mRNA	DICER	http://www.ncbi.nlm.nih.gov/gene/23405	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011298	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7i(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000434	-	-	Host	mRNA	IL-10	http://www.ncbi.nlm.nih.gov/gene/3586	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011299	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7i(has-let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000434	-	-	Host	mRNA	LIN28	http://www.ncbi.nlm.nih.gov/gene/79727	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011300	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-let-7i(let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000434	HUT78 cells	-	Host	mRNA	IL10(IL-10)	http://www.ncbi.nlm.nih.gov/gene/3586	Upregulation	Predicted.	22586040	Our initial in vitro studies demonstrated that HIV-1-infected HUT78 cells expressed significantly higher IL-10 levels compared with uninfected cultures. IL-10 plays an important role in the dysregulated cytotoxic T cell response to HIV-1, and in silico algorithms suggested that let-7 miRNAs target IL10 mRNA.
HHID00011301	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-128(hsa-miR-128)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000447	-	-	Host	mRNA	SNAP25	http://www.ncbi.nlm.nih.gov/gene/6616		-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011302	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-146a(hsa-miR-146)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	-	-	Host	mRNA	CCL8	http://www.ncbi.nlm.nih.gov/gene/6355	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011303	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-146b(hsa-miR-146)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003129	-	-	Host	mRNA	CCL8	http://www.ncbi.nlm.nih.gov/gene/6355	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011304	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-150(hsa-miR-150)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000479	-	-	Host	mRNA	APOBEC3F	http://www.ncbi.nlm.nih.gov/gene/200316	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011305	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-150(hsa-miR-150)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000479	-	-	Host	mRNA	APOBEC3G	http://www.ncbi.nlm.nih.gov/gene/60489	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011306	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-150(hsa-miR-150)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000479	-	-	Host	mRNA	CCNT1	http://www.ncbi.nlm.nih.gov/gene/904	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011307	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-150(hsa-miR-150)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000479	-	-	Host	mRNA	CCR5	http://www.ncbi.nlm.nih.gov/gene/1234	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011308	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-150(hsa-miR-150)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000479	-	-	Host	mRNA	CD4	http://www.ncbi.nlm.nih.gov/gene/920	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011309	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-150-3p(hsa-miR-150*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000479	-	-	Host	mRNA	APOBEC3F	http://www.ncbi.nlm.nih.gov/gene/200316	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011310	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-150-3p(hsa-miR-150*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000479	-	-	Host	mRNA	APOBEC3G	http://www.ncbi.nlm.nih.gov/gene/60489	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011311	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-150-3p(hsa-miR-150*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000479	-	-	Host	mRNA	CCNT1	http://www.ncbi.nlm.nih.gov/gene/904	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011312	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-150-3p(hsa-miR-150*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000479	-	-	Host	mRNA	CCR5	http://www.ncbi.nlm.nih.gov/gene/1234	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011313	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-150-3p(hsa-miR-150*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000479	-	-	Host	mRNA	CD4	http://www.ncbi.nlm.nih.gov/gene/920	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011314	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-17(hsa-miR-17)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000071	-	-	Host	mRNA	KAT8	http://www.ncbi.nlm.nih.gov/gene/84148		-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011315	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-17-5p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000070	lymphocyte	Downregulation	Host	mRNA	KAT2B(PCAF)	http://www.ncbi.nlm.nih.gov/gene/8850	-	Infection and flow cytometry, Transfection Microarray probes, hybridization and analysis, Reverse transcription and real-time PCR.	21569500	Tat RNA silencing suppressor activity contributes to perturbation of lymphocyte miRNA by HIV-1. Two members of the hsa-miR-17/92 cluster, hsa-miR-17-5p and hsa-miR-20a, target the mRNA of the PCAF cofactor of Tat trans-activation. Our results and published microarrays agree in downregulation of these miRNA by HIV-1.
HHID00011316	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-17-5p(hsa-miR-17-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000071	-	-	Host	mRNA	KAT8	http://www.ncbi.nlm.nih.gov/gene/84148		-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011317	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-17-5p(miR-17-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000070	-	-	Host	Protein	KAT2B(PCAF)	http://www.ncbi.nlm.nih.gov/gene/8850	-	Reporter assay, RNAhybrid.	23043098	Independently,miR-17-5p and miR-20a were found by a separate group to target p300/CBPassociated factor(PCAF), another cellular cofactor of the viral Tat protein.
HHID00011318	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-223-5p(hsa-miR-223*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004570	-	-	Host	Protein	APOBEC3F	http://www.ncbi.nlm.nih.gov/gene/200316	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011319	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-223-5p(hsa-miR-223*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004570	-	-	Host	Protein	APOBEC3G	http://www.ncbi.nlm.nih.gov/gene/60489	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011320	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-223-5p(hsa-miR-223*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004570	-	-	Host	Protein	CCNT1	http://www.ncbi.nlm.nih.gov/gene/904	-	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011321	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-223-5p(hsa-miR-223*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004570	-	-	Host	Protein	LIF	http://www.ncbi.nlm.nih.gov/gene/3976	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011322	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-223-5p(hsa-miR-223*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004570	-	-	Host	Protein	RhoB	http://www.ncbi.nlm.nih.gov/gene/388	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011323	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-223-5p(hsa-miR-223*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004570	-	-	Host	Protein	SP3	http://www.ncbi.nlm.nih.gov/gene/6670	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011324	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-27b(miR-27b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000440	CD4+ T lymphocytes	-	Host	Protein	CCNT1(cyclin T1)	http://www.ncbi.nlm.nih.gov/gene/904	Downregulation	CD4+ T cell isolation, miRNA transfections, HIV-1 assays, Protein and RNA analyses, Ago2 immunoprecipitation, Luciferase assays, miRNA expression profiling.	22205749	An miR-27b binding site within the cyclin T1 3' untranslated region (3'UTR) was identified and confirmed to be functional after the mutation of key resides abrogated the ability of miR-27b to decrease the expression of a luciferase reporter upstream of the cyclin T1 3'UTR. These results implicate miR-27b as a novel regulator of cyclin T1 protein levels and HIV-1 replication,.
HHID00011325	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29c(hsa-miR-29c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	-	-	Host	Protein	CCNT1	http://www.ncbi.nlm.nih.gov/gene/904	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011326	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29c(hsa-miR-29c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	-	-	Host	Protein	CDC42	http://www.ncbi.nlm.nih.gov/gene/998	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011327	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29c(hsa-miR-29c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	-	-	Host	Protein	DNMT3A	http://www.ncbi.nlm.nih.gov/gene/1788	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011328	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29c(hsa-miR-29c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	-	-	Host	Protein	DNMT3B	http://www.ncbi.nlm.nih.gov/gene/1789	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011329	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29c(hsa-miR-29c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	-	-	Host	Protein	MCL1(Mcl-1)	http://www.ncbi.nlm.nih.gov/gene/4170	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011330	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29c(hsa-miR-29c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	-	-	Host	Protein	P85a	http://www.ncbi.nlm.nih.gov/gene/5295	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011331	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29c(hsa-miR-29c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	-	-	Host	Protein	RISC	http://www.ncbi.nlm.nih.gov/gene/59342	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011332	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29c(hsa-miR-29c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	-	-	Host	Protein	TCL1A	http://www.ncbi.nlm.nih.gov/gene/8115	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011333	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29c-5p(hsa-miR-29c*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004673	-	-	Host	Protein	CCNT1	http://www.ncbi.nlm.nih.gov/gene/904	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011334	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29c-5p(hsa-miR-29c*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004673	-	-	Host	Protein	CDC42	http://www.ncbi.nlm.nih.gov/gene/998	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011335	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29c-5p(hsa-miR-29c*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004673	-	-	Host	Protein	DNMT3A	http://www.ncbi.nlm.nih.gov/gene/1788	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011336	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29c-5p(hsa-miR-29c*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004673	-	-	Host	Protein	DNMT3B	http://www.ncbi.nlm.nih.gov/gene/1789	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011337	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29c-5p(hsa-miR-29c*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004673	-	-	Host	Protein	MCL1(Mcl-1)	http://www.ncbi.nlm.nih.gov/gene/4170	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011338	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29c-5p(hsa-miR-29c*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004673	-	-	Host	Protein	P85a	http://www.ncbi.nlm.nih.gov/gene/5295	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011339	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29c-5p(hsa-miR-29c*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004673	-	-	Host	Protein	RISC	http://www.ncbi.nlm.nih.gov/gene/59342	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011340	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29c-5p(hsa-miR-29c*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004673	-	-	Host	Protein	TCL1A	http://www.ncbi.nlm.nih.gov/gene/8115	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011341	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-548d-5p(miR-548d-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004812	HEK293T cells	-	Host	Protein	IL1B(IL-1)	http://www.ncbi.nlm.nih.gov/gene/3553	Upregulation	Validation of differentially regulated miRNA and mRNA from the genome-wide array, Microarray data analysis, MiRNA profiling using RT2 MicroRNA PCR Array, Computational analysis validating the miRNA targets and mRNAs, Gene expression profiling.	21829495	Comparative expression profile of miRNA and mRNA in primary peripheral blood mononuclear cells infected with human immunodeficiency virus (HIV-1). Our interaction analyses indicate that IL-1beta could potentially be regulated by miR-211, miR-578, and miR-548d-5p.
HHID00011342	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-101(miR-101)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000103	brain microvascular endothelial cells (BMVECs)	Upregulation	Host	Protein	CDH5	http://www.ncbi.nlm.nih.gov/gene/1003	Downregulation	Luciferase reporter assays.	23554480	We have demonstrated that VE-cadherin is a direct target of miR-101 using a luciferase reporter assay, which showed that mutated VE-cadherin 3'UTR and miR-101 cotransfection did not change luciferase activity.We have identified HIV-1 Tat C-induced disruption of VE-cadherin mediated by miRNA-101 in human brain microvascular endothelial cells (BMVECs). HIV-1 Tat C increased the expression of miR-101, which led to downregulation of VE-cadherin. Overexpression of miR-101 resulted into the suppression of VE-cadherin. Inhibition of miR-101 by the miRNA inhibitor enhanced the expression of VE-cadherin.
HHID00011343	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-106b	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000734	Human peripheral blood mononuclear cells	-	Host	Protein	PURA	http://www.ncbi.nlm.nih.gov/gene/5813	Downregulation	Reporter assay, RNAhybrid.	23043098	A further set of six miRNAs(miR-15a, miR-15b, miR-16, miR-20a, miR-93, and miR-106b)were reported to repress the expression of a third Tat cofactor, PURA, which was noted also to be enriched in monocytes.
HHID00011344	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-125a(miR-125a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000469	-	-	Host	Protein	IFITM3	http://www.ncbi.nlm.nih.gov/gene/10410	Downregulation	-	21786074	Table1 Functions of cellular miRNAs identified in HIV.Protein translation of IFITM3 and sTNFR1A.Table 1 summarizes the list of cellular miRNAs identified in relation to HIV/AIDS, the functions of which are discussed in this review.
HHID00011345	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-125b(miR-125b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000446	Human monocytes	Upregulation	Host	Protein	TLR-3	http://www.ncbi.nlm.nih.gov/gene/7098	-	Enzyme-linked immunosorbent assay for CC chemokines, Flow cytometric analysis, Real-time reverse transcription?polymerase chain reaction, Poly I:C treatment and HIV infection, Statistical analysis, HIV strains and reverse transcriptase assay.	20636339	Further more,TLR-3 activation in macrophages induced the expression of cellular microRNAs(miRNA-28, -125b, -150, -223 and -382), the newly identified intracellular HIV restriction factors.
HHID00011346	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-128-1(miR-128a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000447	293T cells	-	Host	Protein	SNAP25	http://www.ncbi.nlm.nih.gov/gene/6616	Downregulation	Quantitative RT-PCR, Immunohistochemistry, MicroRNA microarray, microRNA functional analysis, Western blots.	18381601	Inhibition of SNAP25 expression by HIV-1 Tat involves the activity of mir-128a. We further show that mir-128a inhibits expression of the pre-synaptic protein SNAP25, whereas the anti-mir-128a partially restores Tat/mir-128a-induced downregulation of SNAP25 expression.
HHID00011347	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-146a(mir-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Fetal microglial cell	Upregulation	Host	Protein	CCL8(MCP-2)	http://www.ncbi.nlm.nih.gov/gene/6355	Downregulation	Dual luciferase assay, Quantitative RT-PCR, Immunohistochemistry, Statistics, miRNA functional analysis, ELISA assay, In situ hybridization.	20181935	We further show that CCL8/MCP-2 is a target for mir-146a in HIV-1 infected microglia, as overexpression of mir-146a prevented HIV-induced secretion of MCP-2 chemokine.
HHID00011348	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-150(miR-150)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000479	Human monocytes	Upregulation	Host	Protein	TLR-3	http://www.ncbi.nlm.nih.gov/gene/7098	-	Enzyme-linked immunosorbent assay for CC chemokines, Flow cytometric analysis, Real-time reverse transcription?polymerase chain reaction, Poly I:C treatment and HIV infection, Statistical analysis, HIV strains and reverse transcriptase assay.	20636339	Further more,TLR-3 activation in macrophages induced the expression of cellular microRNAs(miRNA-28, -125b, -150, -223 and -382), the newly identified intracellular HIV restriction factors.
HHID00011349	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-150(miR-150)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000479	T cells	-	Host	mRNA	CCNT1(Cyclin T1)	http://www.ncbi.nlm.nih.gov/gene/904	-	Reporter assay, RNAhybrid.	23043098	They also found that, in different cellular contexts, other miRNAs regulate cyclin T1(e.g. miR-27b, miR-29b, miR-223, and miR-150), potentially explaining expression differences of HIV in resting versus activated T cells.
HHID00011350	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	Human dendritic cell	-	Host	Protein	DC-SIGN	http://www.ncbi.nlm.nih.gov/gene/30835	Downregulation	-	21786074	Since miR-155 decreases dendritic cell-specific intercellular adhesion molecule-3-grabbing non-integrin(DC-SIGN) expression, by downregulating transcription factor PU.1, miR-155 could be developed as a therapeutic target to prevent entrance of HIV through DC-SIGN binding.
HHID00011351	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-15a(miR-15a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000069	Human peripheral blood mononuclear cells	-	Host	Protein	PURA	http://www.ncbi.nlm.nih.gov/gene/5813	Downregulation	Reporter assay, RNAhybrid.	23043098	A further set of six miRNAs(miR-15a, miR-15b, miR-16, miR-20a, miR-93, and miR-106b)were reported to repress the expression of a third Tat cofactor, PURA, which was noted also to be enriched in monocytes.
HHID00011352	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-15b(miR-15b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000438	Human peripheral blood mononuclear cells	-	Host	Protein	PURA	http://www.ncbi.nlm.nih.gov/gene/5813	Downregulation	Reporter assay, RNAhybrid.	23043098	A further set of six miRNAs(miR-15a, miR-15b, miR-16, miR-20a, miR-93, and miR-106b)were reported to repress the expression of a third Tat cofactor, PURA, which was noted also to be enriched in monocytes.
HHID00011353	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-16(miR-16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000070	Human peripheral blood mononuclear cells	-	Host	Protein	PURA	http://www.ncbi.nlm.nih.gov/gene/5813	Downregulation	Reporter assay, RNAhybrid.	23043098	A further set of six miRNAs(miR-15a, miR-15b, miR-16, miR-20a, miR-93, and miR-106b)were reported to repress the expression of a third Tat cofactor, PURA, which was noted also to be enriched in monocytes.
HHID00011354	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-198	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000240	lymphocyte	Upregulation	Host	Protein	CCNT1(cyclin T1)	http://www.ncbi.nlm.nih.gov/gene/904	Downregulation	Infection and flow cytometry, Transfection Microarray probes, hybridization and analysis, Reverse transcription and real-time PCR.	21569500	Tat RNA silencing suppressor activity contributes to perturbation of lymphocyte miRNA by HIV-1. On the other hand, the level of hsa-miR-198, which targets cyclin T1 [The following popper user interface control may not be accessible. Tab to the next button to revert the control to an accessible version.Destroy user interface control62], is upregulated by all three HIV-1NL4-3 strains tested in this study. Cyclin T1 also acts as a cofactor for Tat transcriptional trans-activation, and upregulation of hsa-miR-198 could reduce cyclin T1 levels.
HHID00011355	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-198(miR-198)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000240	Peripheral blood mononuclear cells	-	Host	Protein	CCNT1(Cyclin T1)	http://www.ncbi.nlm.nih.gov/gene/904	Downregulation	TaqMan MicroRNA assays, dual-luciferase assays, LTR-luciferase reporter assays, quantification, RT-real-time-PCR, plasmid reporter assays, End-point PCR analysis, Dual-Luciferase Reporter Assay System, and target prediction, reporter assay, MiRNA microarray analysis.	19148268	Our data indicate that miR-198 functions to restrict HIV-1 replication in monocytes, and its mechanism of action appears to involve repression of Cyclin T1 expression.
HHID00011356	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-198(miR-198)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000240	T cells	-	Host	mRNA	CCNT1(Cyclin T1)	http://www.ncbi.nlm.nih.gov/gene/904	-	Reporter assay, RNAhybrid.	23043098	Sungand Rice(43) found that miR-198 targets the cyclin T1 mRNA, which encodes a HIV-1 Tat cofactor. They also found that, in different cellular contexts, other miRNAs regulate cyclin T1(e.g. miR-27b, miR-29b, miR-223, and miR-150), potentially explaining expression differences of HIV in resting versus activated T cells.
HHID00011357	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-20a(hsa-miR-20a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000076	lymphocyte	Downregulation	Host	mRNA	KAT2B(PCAF)	http://www.ncbi.nlm.nih.gov/gene/8850	-	Infection and flow cytometry, Transfection Microarray probes, hybridization and analysis, Reverse transcription and real-time PCR.	21569500	Tat RNA silencing suppressor activity contributes to perturbation of lymphocyte miRNA by HIV-1. Two members of the hsa-miR-17/92 cluster, hsa-miR-17-5p and hsa-miR-20a, target the mRNA of the PCAF cofactor of Tat trans-activation. Our results and published microarrays agree in downregulation of these miRNA by HIV-1.
HHID00011358	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-20a(miR-20a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000076	-	-	Host	Protein	PURA	http://www.ncbi.nlm.nih.gov/gene/5813	Downregulation	Reporter assay, RNAhybrid.	23043098	A further set of six miRNAs(miR-15a, miR-15b, miR-16, miR-20a, miR-93, and miR-106b)were reported to repress the expression of a third Tat cofactor, PURA , which was noted also to be enriched in monocytes.
HHID00011359	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-211(miR-211)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000287	HEK293T cells	-	Host	Protein	IL1B(IL-1)	http://www.ncbi.nlm.nih.gov/gene/3553	Downregulation	Validation of differentially regulated miRNA and mRNA from the genome-wide array, Microarray data analysis, MiRNA profiling using RT2 MicroRNA PCR Array, Computational analysis validating the miRNA targets and mRNAs, Gene expression profiling.	21829495	Comparative expression profile of miRNA and mRNA in primary peripheral blood mononuclear cells infected with human immunodeficiency virus (HIV-1). Our interaction analyses indicate that IL-1beta could potentially be regulated by miR-211, miR-578, and miR-548d-5p.
HHID00011360	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-217	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000293	-	-	Host	Protein	SIRT1(SIRT-1)	http://www.ncbi.nlm.nih.gov/gene/23411	Upregulation	Luciferase assays.	23043098	In a converse example, Zhang et al. found that miR-217 was induced by Tat and that miR-217 increased HIV-1 expression by targeting SIRT-1(sirtuin-1), a host protein that deacetylates and inactivates Tat function.
HHID00011361	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-223(hsa-mir-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000300	-	-	Host	Protein	APOBEC3F	http://www.ncbi.nlm.nih.gov/gene/200316	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011362	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-223(hsa-mir-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000300	-	-	Host	Protein	APOBEC3G	http://www.ncbi.nlm.nih.gov/gene/60489	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011363	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-223(hsa-mir-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000300	-	-	Host	Protein	CCNT1	http://www.ncbi.nlm.nih.gov/gene/904	-	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011364	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-223(hsa-mir-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000300	-	-	Host	Protein	LIF	http://www.ncbi.nlm.nih.gov/gene/3976	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011365	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-223(hsa-mir-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000300	-	-	Host	Protein	RhoB	http://www.ncbi.nlm.nih.gov/gene/388	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011366	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-223(hsa-mir-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000300	-	-	Host	Protein	SP3	http://www.ncbi.nlm.nih.gov/gene/6670	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011367	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-223(miR-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000300	-	-	Host	Protein	LIF	http://www.ncbi.nlm.nih.gov/gene/3976	Downregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	Therefore miR-223 could function as a negative factor in HIV-1 infection by reducing RhoB mediated activation of the AKT-NFKB pathway. This miRNA could also function as a positive factor in HIV-1 infection via targeting HIV-1 suppressive Sp3 and LIF.
HHID00011368	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-223(miR-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000300	-	-	Host	Protein	RhoB	http://www.ncbi.nlm.nih.gov/gene/388	Downregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	Therefore miR-223 could function as a negative factor in HIV-1 infection by reducing RhoB mediated activation of the AKT-NFKB pathway. This miRNA could also function as a positive factor in HIV-1 infection via targeting HIV-1 suppressive Sp3 and LIF.
HHID00011369	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-223(miR-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000300	-	-	Host	Protein	SP3	http://www.ncbi.nlm.nih.gov/gene/6670	Downregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	Therefore miR-223 could function as a negative factor in HIV-1 infection by reducing RhoB mediated activation of the AKT-NFKB pathway. This miRNA could also function as a positive factor in HIV-1 infection via targeting HIV-1 suppressive Sp3 and LIF.
HHID00011370	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-223(miR-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000300	Human monocytes	Upregulation	Host	Protein	TLR-3	http://www.ncbi.nlm.nih.gov/gene/7098	-	Enzyme-linked immunosorbent assay for CC chemokines, Flow cytometric analysis, Real-time reverse transcription?polymerase chain reaction, Poly I:C treatment and HIV infection, Statistical analysis, HIV strains and reverse transcriptase assay.	20636339	Further more,TLR-3 activation in macrophages induced the expression of cellular microRNAs(miRNA-28, -125b, -150, -223 and -382), the newly identified intracellular HIV restriction factors.
HHID00011371	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-223(miR-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000300	T cells	-	Host	mRNA	CCNT1(Cyclin T1)	http://www.ncbi.nlm.nih.gov/gene/904	-	Reporter assay, RNAhybrid.	23043098	Other miRNAs regulate cyclin T1(e.g. miR-27b, miR-29b, miR-223, and miR-150), potentially explaining expression differences of HIV in resting versus activated T cells.
HHID00011372	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-27b(miR-27b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000440	CD4+ T lymphocytes	-	Host	Protein	DNMT3A	http://www.ncbi.nlm.nih.gov/gene/1788	Upregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	MiR-29 targets include Mcl-1, DNMT 3A/B, Tcl1, p85 (the regulatory subunit of PI3 kinase) and CDC42. Upregulation of DNMT 3A/B may trigger global DNA methylation thereby epigenetically silencing expression of immune system genes involved in the host viral defense mechanism (54). Intriguingly, upregulated DNMT 3A/B may also methylate the LTR region of integrated HIV-1 thereby silencing the viral LTR promoter activity, which could contribute to HIV-1 latency.
HHID00011373	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-27b(miR-27b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000440	CD4+ T lymphocytes	-	Host	Protein	DNMT3B	http://www.ncbi.nlm.nih.gov/gene/1789	Upregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	MiR-29 targets include Mcl-1, DNMT 3A/B, Tcl1, p85 (the regulatory subunit of PI3 kinase) and CDC42. Upregulation of DNMT 3A/B may trigger global DNA methylation thereby epigenetically silencing expression of immune system genes involved in the host viral defense mechanism (54). Intriguingly, upregulated DNMT 3A/B may also methylate the LTR region of integrated HIV-1 thereby silencing the viral LTR promoter activity, which could contribute to HIV-1 latency.
HHID00011374	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-27b(miR-27b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000440	CD4+ T lymphocytes	-	Host	Protein	MCL1(Mcl-1)	http://www.ncbi.nlm.nih.gov/gene/4170	Downregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	MiR-29 targets include Mcl-1, DNMT 3A/B, Tcl1, p85 (the regulatory subunit of PI3 kinase) and CDC42 (45-48). Mcl1 is an anti-apoptosis protein and its overexpression results in B cell lymphomas (49). This protein could be upregulated during HIV-1 infection to inhibit viral triggered apoptosis.
HHID00011375	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-27b(miR-27b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000440	CD4+ T lymphocytes	-	Host	Protein	P85a	http://www.ncbi.nlm.nih.gov/gene/5295	Downregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	Interplay between HIV-1 infection and host microRNAs. By targeting P85a and CDC42, miR-29 can upregulate p53 levels and induce apoptosis in a p53-dependent manner.
HHID00011376	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-27b(miR-27b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000440	CD4+ T lymphocytes	-	Host	Protein	TCL1A(Tcl1)	http://www.ncbi.nlm.nih.gov/gene/8115	Upregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	MiR-29 targets include Mcl-1, DNMT 3A/B, Tcl1, p85 (the regulatory subunit of PI3 kinase) and CDC42. Tcl1 is an AKT kinase coactivator that can enhance AKT kinase activity (55-57), possibly facilitating HIV-1 infection when upregulated.
HHID00011377	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-27b(miR-27b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000440	CD4+ T lymphocytes	-	Host	mRNA	CCNT1(cyclin T1)	http://www.ncbi.nlm.nih.gov/gene/904	-	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	Interplay between HIV-1 infection and host microRNAs. Furthermore, we show that miR-27b inhibits viral replication via the direct targeting of cyclin T1 mRNA and, along with miR-29b, mediates the targeting of cyclin T1 mRNA to the RISC.
HHID00011378	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-27b(miR-27b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000440	T cells	-	Host	mRNA	CCNT1(Cyclin T1)	http://www.ncbi.nlm.nih.gov/gene/904	-	Reporter assay, RNAhybrid.	23043098	Other miRNAs regulate cyclin T1(e.g. miR-27b, miR-29b, miR-223, and miR-150), potentially explaining expression differences of HIV in resting versus activated T cells.
HHID00011379	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-28(miRNA-28)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000086	Human monocytes	Upregulation	Host	Protein	TLR-3	http://www.ncbi.nlm.nih.gov/gene/7098	-	Enzyme-linked immunosorbent assay for CC chemokines, Flow cytometric analysis, Real-time reverse transcription?polymerase chain reaction, Poly I:C treatment and HIV infection, Statistical analysis, HIV strains and reverse transcriptase assay.	20636339	Further more,TLR-3 activation in macrophages induced the expression of cellular microRNAs(miRNA-28, -125b, -150, -223 and -382), the newly identified intracellular HIV restriction factors.
HHID00011380	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	CD4+ T lymphocytes	-	Host	Protein	CDC42	http://www.ncbi.nlm.nih.gov/gene/998	Upregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	Interplay between HIV-1 infection and host microRNAs. By targeting P85a and CDC42, miR-29 can upregulate p53 levels and induce apoptosis in a p53-dependent manner.
HHID00011381	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	CD4+ T lymphocytes	-	Host	Protein	DNMT3A	http://www.ncbi.nlm.nih.gov/gene/1788	Upregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	MiR-29 targets include Mcl-1, DNMT 3A/B, Tcl1, p85 (the regulatory subunit of PI3 kinase) and CDC42. Upregulation of DNMT 3A/B may trigger global DNA methylation thereby epigenetically silencing expression of immune system genes involved in the host viral defense mechanism (54). Intriguingly, upregulated DNMT 3A/B may also methylate the LTR region of integrated HIV-1 thereby silencing the viral LTR promoter activity, which could contribute to HIV-1 latency.
HHID00011382	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	CD4+ T lymphocytes	-	Host	Protein	DNMT3B	http://www.ncbi.nlm.nih.gov/gene/1789	Upregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	MiR-29 targets include Mcl-1, DNMT 3A/B, Tcl1, p85 (the regulatory subunit of PI3 kinase) and CDC42. Upregulation of DNMT 3A/B may trigger global DNA methylation thereby epigenetically silencing expression of immune system genes involved in the host viral defense mechanism (54). Intriguingly, upregulated DNMT 3A/B may also methylate the LTR region of integrated HIV-1 thereby silencing the viral LTR promoter activity, which could contribute to HIV-1 latency.
HHID00011383	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	CD4+ T lymphocytes	-	Host	Protein	MCL1(Mcl-1)	http://www.ncbi.nlm.nih.gov/gene/4170	Downregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	MiR-29 targets include Mcl-1, DNMT 3A/B, Tcl1, p85 (the regulatory subunit of PI3 kinase) and CDC42 (45-48). Mcl1 is an anti-apoptosis protein and its overexpression results in B cell lymphomas (49). This protein could be upregulated during HIV-1 infection to inhibit viral triggered apoptosis.
HHID00011384	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	CD4+ T lymphocytes	-	Host	Protein	P85a	http://www.ncbi.nlm.nih.gov/gene/5295	Downregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	Interplay between HIV-1 infection and host microRNAs. By targeting P85a and CDC42, miR-29 can upregulate p53 levels and induce apoptosis in a p53-dependent manner.
HHID00011385	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	CD4+ T lymphocytes	-	Host	Protein	TCL1A(Tcl1)	http://www.ncbi.nlm.nih.gov/gene/8115	Upregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	MiR-29 targets include Mcl-1, DNMT 3A/B, Tcl1, p85 (the regulatory subunit of PI3 kinase) and CDC42. Tcl1 is an AKT kinase coactivator that can enhance AKT kinase activity (55-57), possibly facilitating HIV-1 infection when upregulated.
HHID00011386	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29b(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000105	CD4+ T lymphocytes	-	Host	Protein	CDC42	http://www.ncbi.nlm.nih.gov/gene/998	Upregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	Interplay between HIV-1 infection and host microRNAs. By targeting P85a and CDC42, miR-29 can upregulate p53 levels and induce apoptosis in a p53-dependent manner.
HHID00011387	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29b(miR-29b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000105	CD4+ T lymphocytes	-	Host	mRNA	CCNT1(cyclin T1)	http://www.ncbi.nlm.nih.gov/gene/904	-	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	Interplay between HIV-1 infection and host microRNAs. Furthermore, we show that miR-27b inhibits viral replication via the direct targeting of cyclin T1 mRNA and, along with miR-29b, mediates the targeting of cyclin T1 mRNA to the RISC.
HHID00011388	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29b(miR-29b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000105	T cells	-	Host	mRNA	CCNT1(Cyclin T1)	http://www.ncbi.nlm.nih.gov/gene/904	-	Reporter assay, RNAhybrid.	23043098	Other miRNAs regulate cyclin T1(e.g. miR-27b, miR-29b, miR-223, and miR-150), potentially explaining expression differences of HIV in resting versus activated T cells.
HHID00011389	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29c(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	CD4+ T lymphocytes	-	Host	Protein	CDC42	http://www.ncbi.nlm.nih.gov/gene/998	Upregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	Interplay between HIV-1 infection and host microRNAs. By targeting P85a and CDC42, miR-29 can upregulate p53 levels and induce apoptosis in a p53-dependent manner.
HHID00011390	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29c(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	CD4+ T lymphocytes	-	Host	Protein	DNMT3A	http://www.ncbi.nlm.nih.gov/gene/1788	Upregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	MiR-29 targets include Mcl-1, DNMT 3A/B, Tcl1, p85 (the regulatory subunit of PI3 kinase) and CDC42. Upregulation of DNMT 3A/B may trigger global DNA methylation thereby epigenetically silencing expression of immune system genes involved in the host viral defense mechanism (54). Intriguingly, upregulated DNMT 3A/B may also methylate the LTR region of integrated HIV-1 thereby silencing the viral LTR promoter activity, which could contribute to HIV-1 latency.
HHID00011391	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29c(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	CD4+ T lymphocytes	-	Host	Protein	DNMT3B	http://www.ncbi.nlm.nih.gov/gene/1789	Upregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	MiR-29 targets include Mcl-1, DNMT 3A/B, Tcl1, p85 (the regulatory subunit of PI3 kinase) and CDC42. Upregulation of DNMT 3A/B may trigger global DNA methylation thereby epigenetically silencing expression of immune system genes involved in the host viral defense mechanism (54). Intriguingly, upregulated DNMT 3A/B may also methylate the LTR region of integrated HIV-1 thereby silencing the viral LTR promoter activity, which could contribute to HIV-1 latency.
HHID00011392	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29c(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	CD4+ T lymphocytes	-	Host	Protein	MCL1(Mcl-1)	http://www.ncbi.nlm.nih.gov/gene/4170	Downregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	MiR-29 targets include Mcl-1, DNMT 3A/B, Tcl1, p85 (the regulatory subunit of PI3 kinase) and CDC42 (45-48). Mcl1 is an anti-apoptosis protein and its overexpression results in B cell lymphomas (49). This protein could be upregulated during HIV-1 infection to inhibit viral triggered apoptosis.
HHID00011393	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29c(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	CD4+ T lymphocytes	-	Host	Protein	P85a	http://www.ncbi.nlm.nih.gov/gene/5295	Downregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	Interplay between HIV-1 infection and host microRNAs. By targeting P85a and CDC42, miR-29 can upregulate p53 levels and induce apoptosis in a p53-dependent manner.
HHID00011394	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29c(miR-29)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	CD4+ T lymphocytes	-	Host	Protein	TCL1A(Tcl1)	http://www.ncbi.nlm.nih.gov/gene/8115	Upregulation	Dual Luciferase reporter assays, Immunobloting, MiRNA quantification with TaqMan? MicroRNA Assay, RNA isolation, Lentivirus production, Cell cycle analysis, northern blot.	22080513	MiR-29 targets include Mcl-1, DNMT 3A/B, Tcl1, p85 (the regulatory subunit of PI3 kinase) and CDC42. Tcl1 is an AKT kinase coactivator that can enhance AKT kinase activity (55-57), possibly facilitating HIV-1 infection when upregulated.
HHID00011395	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-31(miR-31)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000089	CD4+ T-cell	Downregulation	Host	Protein	SATB2	http://www.ncbi.nlm.nih.gov/gene/23314	-	TLDA profiling.	22240256	miRNA profiles, obtained using multiple acquisition, data processing, and analysis methods, distinguished ES and uninfected controls from viremic HIV-1-infected patients. Differentially expressed miRNAs included those with reported roles in HIV-1 latency (miR-29 family members, miRs -125b and -150). Others, such as miR-31 and miR-31*, had no previously reported connection with HIV-1 infection but were found here to differ significantly with uncontrolled HIV-1 replication. The validated target of miR-31, the special AT-rich binding protein 2 (SATB2) [The following popper user interface control may not be accessible. Tab to the next button to revert the control to an accessible version.Destroy user interface control43], is part of a gene regulatory family needed for differentiation within the T-cell lineage.
HHID00011396	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-34a(hsa-mir-34a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000268	-	-	Host	Protein	CREBBP	http://www.ncbi.nlm.nih.gov/gene/1387	-	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011397	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-34a(hsa-mir-34a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000268	-	-	Host	Protein	CREBBP	http://www.ncbi.nlm.nih.gov/gene/1387	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HHID00011398	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-382(miR-382)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000790	Human monocytes	Upregulation	Host	Protein	TLR-3	http://www.ncbi.nlm.nih.gov/gene/7098	-	Enzyme-linked immunosorbent assay for CC chemokines, Flow cytometric analysis, Real-time reverse transcription?polymerase chain reaction, Poly I:C treatment and HIV infection, Statistical analysis, HIV strains and reverse transcriptase assay.	20636339	Further more,TLR-3 activation in macrophages induced the expression of cellular microRNAs(miRNA-28, -125b, -150, -223 and -382), the newly identified intracellular HIV restriction factors.
HHID00011399	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-578(miR-578)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003585	HEK293T cells	-	Host	Protein	IL1B(IL-1)	http://www.ncbi.nlm.nih.gov/gene/3553	Upregulation	Validation of differentially regulated miRNA and mRNA from the genome-wide array, Microarray data analysis, MiRNA profiling using RT2 MicroRNA PCR Array, Computational analysis validating the miRNA targets and mRNAs, Gene expression profiling.	21829495	Comparative expression profile of miRNA and mRNA in primary peripheral blood mononuclear cells infected with human immunodeficiency virus (HIV-1). Our interaction analyses indicate that IL-1beta could potentially be regulated by miR-211, miR-578, and miR-548d-5p.
HHID00011400	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-93(miR-93)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000095	Human peripheral blood mononuclear cells	-	Host	Protein	PURA	http://www.ncbi.nlm.nih.gov/gene/5813	Downregulation	Reporter assay, RNAhybrid.	23043098	Afurther set of six miRNAs(miR-15a, miR-15b, miR-16, miR-20a, miR-93, and miR-106b)were reported to repress the expression of a third Tat cofactor, PURA, which was noted also to be enriched in monocytes.
HHID00011401	Human papillomavirus 16(HPV16)	Homo sapiens	Host	miRNA	hsa-mir-203a(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000283	-	Upregulation	Host	Protein	TP53(p53)	http://www.ncbi.nlm.nih.gov/gene/7157	-	Western blot analysis, microRNA real-time PCR, Reverse transcription-PCR (RT-PCR) analysis, Northern blotting for microRNAs, Immunofluorescence staining and analysis.	20702634	In summary, these results indicate that expression of miR-203 is dependent on p53, which may explain how expression of HPV16 E6 can disrupt the balance between proliferation and differentiation, as well as the response to DNA damage, in keratinocytes.
HHID00011402	Human papillomavirus 16(HPV16)	Homo sapiens	Host	miRNA	hsa-mir-203b(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0017343	-	Upregulation	Host	Protein	TP53(p53)	http://www.ncbi.nlm.nih.gov/gene/7157	-	Western blot analysis, microRNA real-time PCR, Reverse transcription-PCR (RT-PCR) analysis, Northern blotting for microRNAs, Immunofluorescence staining and analysis.	20702634	In summary, these results indicate that expression of miR-203 is dependent on p53, which may explain how expression of HPV16 E6 can disrupt the balance between proliferation and differentiation, as well as the response to DNA damage, in keratinocytes.
HHID00011403	Human papillomavirus(HPV)	Homo sapiens	Host	miRNA	hsa-mir-128(miR128)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000447	Cervical lesions	Downregulation	Host	Protein	LAMB3	http://www.ncbi.nlm.nih.gov/gene/3914	Upregulation	MicroRNA and mRNA real-time quantitative RT-PCR analysis, MicroRNA Northern blot analysis, MicroRNA microarray analysis, Western blot analysis.	17998940	Human papillomavirus type 16 reduces the expression of microRNA-218 in cervical carcinoma cells.We also demonstrate that the epithelial cell-specific marker LAMB3 is a target of miR-218.
HHID00011404	Human papillomavirus(HPV)	Homo sapiens	Host	miRNA	hsa-mir-203a(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000283	Foreskin keratinocytes	-	Host	Protein	P63	http://www.ncbi.nlm.nih.gov/gene/10970	-	QRT-PCR, Luciferase assay, Northern blot analysis, Western blot analysis, Southern blot analysis.	20219920	Human papillomaviruses modulate expression of microRNA 203 upon epithelial differentiation to control levels of p63 proteins. One target of miR-203 is the p63 family of transcription factors.
HHID00011405	Human papillomavirus(HPV)	Homo sapiens	Host	miRNA	hsa-mir-203b(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0017343	Foreskin keratinocytes	-	Host	Protein	P63	http://www.ncbi.nlm.nih.gov/gene/10970	-	QRT-PCR, Luciferase assay, Northern blot analysis, Western blot analysis, Southern blot analysis.	20219920	Human papillomaviruses modulate expression of microRNA 203 upon epithelial differentiation to control levels of p63 proteins. One target of miR-203 is the p63 family of transcription factors.
HHID00011406	Human papillomavirus(HPV)	Homo sapiens	Host	miRNA	hsa-mir-218(miR-218)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000294	Cervical squamous cell	Downregulation	Host	Protein	LAMB3	http://www.ncbi.nlm.nih.gov/gene/3914	Upregulation	silico analysis.	23483249	Cervical squamous cell carcinoma (cervical SCC), one of the most frequent types of cervical cancers, is associated with high-risk human papilloma virus (HPV). These data indicated that miR-218 acts as a tumor suppressor in cervical SCC. Our in silico analysis showed that miR-218 appeared to be an important modulator of tumor cell processes through suppression of many targets, particularly those involved in focal adhesion signaling pathways.Gene expression data indicated that LAMB3, a laminin protein known to influence cell differentiation, migration, adhesion, proliferation and survival, was upregulated in cervical SCC clinical specimens, and silencing studies demonstrated that LAMB3 functioned as an oncogene in cervical SCC.
HHID00011407	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-let-7g(let-7g)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	Peripheral blood mononuclear cells	-	Host	Protein	MAPK11	http://www.ncbi.nlm.nih.gov/gene/5600	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011408	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-let-7g(let-7g)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	Peripheral blood mononuclear cells	-	Host	Protein	MAPK13	http://www.ncbi.nlm.nih.gov/gene/5603	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011409	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-let-7g(let-7g)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	Peripheral blood mononuclear cells	-	Host	Protein	MAPK14	http://www.ncbi.nlm.nih.gov/gene/1432	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011410	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-let-7g(let-7g)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	Peripheral blood mononuclear cells	Downregulation	Host	Protein	CASP3(caspase-3)	http://www.ncbi.nlm.nih.gov/gene/836	Upregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	In our study, CASP3 was significantly upregulated by qRT-PCR analysis(Figure  6) and targeted by the downregulated miRNAs: miR-342-3p, miR-29b, miR-29c, miR-29a, let-7g and miR-34b, which can be expected to develop miRNA-based therapeutics for influenza.
HHID00011411	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-let-7g(let-7g)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	Peripheral blood mononuclear cells	Downregulation	Host	Protein	EGFR	http://www.ncbi.nlm.nih.gov/gene/1956	Upregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	We found that EGFR was regulated by miR-342, miR-155, miR-30b, miR-210, miR-192, let-7g, and miR-146b-5p, which were all down expressed in H1N1 critically ill patients.These downregulated miRNAs can upregulate EGFR expression, resulting in easier virus replication and propagation at the early stage of infection. .
HHID00011412	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-miR-29c(miR-29c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	Peripheral blood mononuclear cells	Downregulation	Host	Protein	CASP3(caspase-3)	http://www.ncbi.nlm.nih.gov/gene/836	Upregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	In our study, CASP3 was significantly upregulated by qRT-PCR analysis(Figure  6) and targeted by the downregulated miRNAs: miR-342-3p, miR-29b, miR-29c, miR-29a, let-7g and miR-30b, which can be expected to develop miRNA-based therapeutics for influenza disease.
HHID00011413	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-1281(miR-1281)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006428	A549 cells	-	Host	mRNA	RAB4B	http://www.ncbi.nlm.nih.gov/gene/53916	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011414	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-1281(miR-1281)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006429	A549 cells	-	Host	mRNA	FCGBP	http://www.ncbi.nlm.nih.gov/gene/8857	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011415	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-1281(miR-1281)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006429	A549 cells	-	Host	mRNA	FGA	http://www.ncbi.nlm.nih.gov/gene/2243	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011416	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-1281(miR-1281)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006429	A549 cells	-	Host	mRNA	SMOC1	http://www.ncbi.nlm.nih.gov/gene/64093	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011417	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-1281(miR-1281)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006429	A549 cells	-	Host	mRNA	TRIM9	http://www.ncbi.nlm.nih.gov/gene/114088	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011418	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-1281(miR-1281)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006430	A549 cells	-	Host	mRNA	TCN1	http://www.ncbi.nlm.nih.gov/gene/6947	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011419	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-1281(miR-1281)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006431	A549 cells	-	Host	mRNA	SLC29A4	http://www.ncbi.nlm.nih.gov/gene/222962	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011420	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-1281(miR-1281)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006432	A549 cells	-	Host	mRNA	CA9	http://www.ncbi.nlm.nih.gov/gene/768	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011421	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-1281(miR-1281)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006433	A549 cells	-	Host	mRNA	MUC5AC	http://www.ncbi.nlm.nih.gov/gene/4586	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011422	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-1281(miR-1281)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006434	A549 cells	-	Host	mRNA	KIAA1199	http://www.ncbi.nlm.nih.gov/gene/57214	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011423	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-1281(miR-1281)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006435	A549 cells	-	Host	mRNA	C6orf117	http://www.ncbi.nlm.nih.gov/gene/112609	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011424	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-1281(miR-1281)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006436	A549 cells	-	Host	mRNA	SLC16A3	http://www.ncbi.nlm.nih.gov/gene/9123	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011425	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-1281(miR-1281)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006437	A549 cells	-	Host	mRNA	CHGB	http://www.ncbi.nlm.nih.gov/gene/1114	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011426	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-1281(miR-1281)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006438	A549 cells	-	Host	mRNA	C10orf11	http://www.ncbi.nlm.nih.gov/gene/83938	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011427	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-1281(miR-1281)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006439	A549 cells	-	Host	mRNA	STEAP1	http://www.ncbi.nlm.nih.gov/gene/26872	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011428	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-138-1(miR-138-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000476	A549 cells	-	Host	mRNA	CPS1	http://www.ncbi.nlm.nih.gov/gene/1373	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011429	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-138-1(miR-138-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000476	A549 cells	-	Host	mRNA	FGA	http://www.ncbi.nlm.nih.gov/gene/2243	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011430	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-138-1(miR-138-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000476	A549 cells	-	Host	mRNA	LGSN	http://www.ncbi.nlm.nih.gov/gene/51557	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011431	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-138-1(miR-138-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000476	A549 cells	-	Host	mRNA	OCEL1	http://www.ncbi.nlm.nih.gov/gene/79629	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011432	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-138-1(miR-138-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000476	A549 cells	-	Host	mRNA	PLD1	http://www.ncbi.nlm.nih.gov/gene/5337	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011433	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-138-1(miR-138-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000476	A549 cells	-	Host	mRNA	SCARA5	http://www.ncbi.nlm.nih.gov/gene/286133	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011434	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-138-1(miR-138-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000476	A549 cells	-	Host	mRNA	SMOC1	http://www.ncbi.nlm.nih.gov/gene/51557	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011435	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-138-1(miR-138-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000476	A549 cells	-	Host	mRNA	STC1	http://www.ncbi.nlm.nih.gov/gene/6781	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011436	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-138-1(miR-138-1)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000476	A549 cells	-	Host	mRNA	STEAP2	http://www.ncbi.nlm.nih.gov/gene/261729	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011437	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-141	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000457	Epithelial cells	Upregulation	Host	Protein	TGFB2(TGF-beta2)	http://www.ncbi.nlm.nih.gov/gene/7042	Downregulation	Enzyme-linked immunosorbent assay (ELISA), qRT-PCR, gene expression profiles.	23663545	Interestingly,we demonstrated that miR-141, which was more highly induced by H5N1 than by H1N1(p < 0.05), had an ability to suppress the expression of a cytokine - transforming growth factor(TGF)-beta2.Since TGF-beta2 is an important cytokine that can act as both an immunosuppressive agent and a potent proinflammatory molecule through its ability to attract and regulate inflammatory molecules, and previous report showed that only seasonal influenza H1N1(but not the other avian influenza subtypes) could induce a persistent expression of TGF-beta2, we speculate that the modulation of TGF-beta2 expression by different influenza subtypes via miR-141 might be a critical step for determining the outcome of either normal or excessive inflammation progression.
HHID00011438	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	ABL2	http://www.ncbi.nlm.nih.gov/gene/27	Downregulation	RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011439	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	BCL11A	http://www.ncbi.nlm.nih.gov/gene/53335		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011440	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	BCORL1	http://www.ncbi.nlm.nih.gov/gene/63035		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011441	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	CARD10	http://www.ncbi.nlm.nih.gov/gene/29775		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011442	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	DNPEP	http://www.ncbi.nlm.nih.gov/gene/23549		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011443	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	FLOT2	http://www.ncbi.nlm.nih.gov/gene/2319		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011444	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	GALNT10	http://www.ncbi.nlm.nih.gov/gene/55568		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011445	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	IRAK1(IRAK-1)	http://www.ncbi.nlm.nih.gov/gene/3654		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011446	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	KBTBD3	http://www.ncbi.nlm.nih.gov/gene/143879		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011447	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	KDM6B(JMJD3)	http://www.ncbi.nlm.nih.gov/gene/23135		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011448	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	LFNG	http://www.ncbi.nlm.nih.gov/gene/3955		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011449	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	SLC2A3	http://www.ncbi.nlm.nih.gov/gene/6515		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011450	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	STRA13	http://www.ncbi.nlm.nih.gov/gene/201254		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011451	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	STRBP	http://www.ncbi.nlm.nih.gov/gene/55342		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011452	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	SYT1	http://www.ncbi.nlm.nih.gov/gene/6857		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011453	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	ZNF532	http://www.ncbi.nlm.nih.gov/gene/55205		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011454	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146b(miR-146b-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003129	Peripheral blood mononuclear cells	-	Host	Protein	MAPK11	http://www.ncbi.nlm.nih.gov/gene/5600	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011455	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146b(miR-146b-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003129	Peripheral blood mononuclear cells	-	Host	Protein	MAPK13	http://www.ncbi.nlm.nih.gov/gene/5603	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011456	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146b(miR-146b-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003129	Peripheral blood mononuclear cells	-	Host	Protein	MAPK14	http://www.ncbi.nlm.nih.gov/gene/1432	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011457	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-146b(miR-146b-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003129	Peripheral blood mononuclear cells	Downregulation	Host	Protein	EGFR	http://www.ncbi.nlm.nih.gov/gene/1956	Upregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	We found that EGFR was regulated by miR-342, miR-155, miR-30b, miR-210, miR-192, let-7g, and miR-146b-5p, which were all down expressed in H1N1 critically ill patients.These downregulated miRNAs can upregulate EGFR expression, resulting in easier virus replication and propagation at the early stage of infection. .
HHID00011458	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-148a(miR-148a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000253	Peripheral blood mononuclear cells	-	Host	Protein	TGFBR1	http://www.ncbi.nlm.nih.gov/gene/7046	Downregulation	Predicted.	23731466	TGFBR1 and TP53 were both predicted to be regulated by high-expressed miR-148a.In our study, TGF-beta receptor 1 (TGFBR1) was found to be downregulated.TP53 was also found to be downregulated. .
HHID00011459	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-148a(miR-148a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000253	Peripheral blood mononuclear cells	-	Host	Protein	TP53	http://www.ncbi.nlm.nih.gov/gene/7157	Downregulation	Predicted.	23731466	TGFBR1 and TP53 were both predicted to be regulated by high-expressed miR-148a.In our study, TGF-beta receptor 1 (TGFBR1) was found to be downregulated.TP53 was also found to be downregulated. .
HHID00011460	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	Peripheral blood mononuclear cells	Downregulation	Host	Protein	EGFR	http://www.ncbi.nlm.nih.gov/gene/1956	Upregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	We found that EGFR was regulated by miR-342, miR-155, miR-30b, miR-210, miR-192, let-7g, and miR-146b-5p, which were all down expressed in H1N1 critically ill patients.These downregulated miRNAs can upregulate EGFR expression, resulting in easier virus replication and propagation at the early stage of infection. .
HHID00011461	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-181a(miR-181a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000269	A549 cells	-	Host	mRNA	ATE1	http://www.ncbi.nlm.nih.gov/gene/11101	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011462	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-181a(miR-181a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000269	A549 cells	-	Host	mRNA	BIRC5	http://www.ncbi.nlm.nih.gov/gene/332	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011463	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-181a(miR-181a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000269	A549 cells	-	Host	mRNA	C4BPB	http://www.ncbi.nlm.nih.gov/gene/725	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011464	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-181a(miR-181a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000269	A549 cells	-	Host	mRNA	CCNB1	http://www.ncbi.nlm.nih.gov/gene/891	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011465	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-181a(miR-181a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000269	A549 cells	-	Host	mRNA	EID3	http://www.ncbi.nlm.nih.gov/gene/493861	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011466	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-181a(miR-181a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000269	A549 cells	-	Host	mRNA	ETS1	http://www.ncbi.nlm.nih.gov/gene/2113	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011467	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-181a(miR-181a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000269	A549 cells	-	Host	mRNA	GTSE1	http://www.ncbi.nlm.nih.gov/gene/51512	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011468	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-181a(miR-181a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000269	A549 cells	-	Host	mRNA	INCENP	http://www.ncbi.nlm.nih.gov/gene/3619	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011469	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-181a(miR-181a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000269	A549 cells	-	Host	mRNA	PSRC1	http://www.ncbi.nlm.nih.gov/gene/84722	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011470	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-181a(miR-181a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000269	A549 cells	-	Host	mRNA	RAD23B	http://www.ncbi.nlm.nih.gov/gene/5887	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011471	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-181a(miR-181a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000269	A549 cells	-	Host	mRNA	SLC6A6	http://www.ncbi.nlm.nih.gov/gene/6533	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011472	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-181a(miR-181a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000269	A549 cells	-	Host	mRNA	STX11	http://www.ncbi.nlm.nih.gov/gene/8676	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011473	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-181a(miR-181a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000269	A549 cells	-	Host	mRNA	TPX2	http://www.ncbi.nlm.nih.gov/gene/22974	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011474	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-181a(miR-181a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000269	A549 cells	-	Host	mRNA	TUBA3D	http://www.ncbi.nlm.nih.gov/gene/113457	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011475	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-192(miR-192)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000234	Peripheral blood mononuclear cells	Downregulation	Host	Protein	EGFR	http://www.ncbi.nlm.nih.gov/gene/1956	Upregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	We found that EGFR was regulated by miR-342, miR-155, miR-30b, miR-210, miR-192, let-7g, and miR-146b-5p, which were all down expressed in H1N1 critically ill patients.These downregulated miRNAs can upregulate EGFR expression, resulting in easier virus replication and propagation at the early stage of infection. .
HHID00011476	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-210(miR-210)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000286	Peripheral blood mononuclear cells	Downregulation	Host	Protein	EGFR	http://www.ncbi.nlm.nih.gov/gene/1956	Upregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	We found that EGFR was regulated by miR-342, miR-155, miR-30b, miR-210, miR-192, let-7g, and miR-146b-5p, which were all down expressed in H1N1 critically ill patients.These downregulated miRNAs can upregulate EGFR expression, resulting in easier virus replication and propagation at the early stage of infection. .
HHID00011477	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-210(miR-210)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000286	Peripheral blood mononuclear cells	Downregulation	Host	mRNA	Mx1	http://www.ncbi.nlm.nih.gov/gene/4599	Downregulation	Predicted.	23731466	In our study, we found that Mx1 mRNA was significantly upregulated in H1N1 critically ill patients by qRT-PCR assay. No validated miRNA targeting Mx1 has been reported; thus,Our miRNA target prediction result indicated that Mx1 can be negatively regulated by miR-342-3p and miR-210, which were both down expressed in H1N1 critically ill patient.
HHID00011478	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	Peripheral blood mononuclear cells	Downregulation	Host	Protein	CASP3(caspase-3)	http://www.ncbi.nlm.nih.gov/gene/836	Upregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	In our study, CASP3 was significantly upregulated by qRT-PCR analysis(Figure  6) and targeted by the downregulated miRNAs: miR-342-3p, miR-29b, miR-29c, miR-29a, let-7g and miR-34b, which can be expected to develop miRNA-based therapeutics for influenza.
HHID00011479	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-29b-1(miR-29b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000105	Peripheral blood mononuclear cells	Downregulation	Host	Protein	CASP3(caspase-3)	http://www.ncbi.nlm.nih.gov/gene/836	Upregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	In our study, CASP3 was significantly upregulated by qRT-PCR analysis(Figure  6) and targeted by the downregulated miRNAs: miR-342-3p, miR-29b, miR-29c, miR-29a, let-7g and miR-34b, which can be expected to develop miRNA-based therapeutics for influenza.
HHID00011480	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-29b-2(miR-29b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000105	Peripheral blood mononuclear cells	Downregulation	Host	Protein	CASP3(caspase-3)	http://www.ncbi.nlm.nih.gov/gene/836	Upregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	In our study, CASP3 was significantly upregulated by qRT-PCR analysis(Figure  6) and targeted by the downregulated miRNAs: miR-342-3p, miR-29b, miR-29c, miR-29a, let-7g and miR-34b, which can be expected to develop miRNA-based therapeutics for influenza.
HHID00011481	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30a(miR-30a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000088	A549 cells	-	Host	mRNA	AXL	http://www.ncbi.nlm.nih.gov/gene/558	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011482	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30a(miR-30a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000088	A549 cells	-	Host	mRNA	BIRC3	http://www.ncbi.nlm.nih.gov/gene/330	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011483	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30a(miR-30a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000088	A549 cells	-	Host	mRNA	BU857004	http://www.ncbi.nlm.nih.gov/gene/6533	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011484	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30a(miR-30a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000088	A549 cells	-	Host	mRNA	CCNB2	http://www.ncbi.nlm.nih.gov/gene/9133	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011485	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30a(miR-30a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000088	A549 cells	-	Host	mRNA	CDCA8	http://www.ncbi.nlm.nih.gov/gene/55143	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011486	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30a(miR-30a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000088	A549 cells	-	Host	mRNA	DEPDC1B	http://www.ncbi.nlm.nih.gov/gene/55789	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011487	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30a(miR-30a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000088	A549 cells	-	Host	mRNA	INCENP	http://www.ncbi.nlm.nih.gov/gene/3619	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011488	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30a(miR-30a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000088	A549 cells	-	Host	mRNA	KIF11	http://www.ncbi.nlm.nih.gov/gene/3832	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011489	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30a(miR-30a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000088	A549 cells	-	Host	mRNA	RAD23B	http://www.ncbi.nlm.nih.gov/gene/5887	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011490	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30a(miR-30a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000088	A549 cells	-	Host	mRNA	SLC6A6	http://www.ncbi.nlm.nih.gov/gene/6533	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011491	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30a(miR-30a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000088	A549 cells	-	Host	mRNA	ZCCHC16(MAR4)	http://www.ncbi.nlm.nih.gov/gene/340595	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011492	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30b(miR-30b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000441	Peripheral blood mononuclear cells	-	Host	Protein	MAPK11	http://www.ncbi.nlm.nih.gov/gene/5600	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011493	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30b(miR-30b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000441	Peripheral blood mononuclear cells	-	Host	Protein	MAPK13	http://www.ncbi.nlm.nih.gov/gene/5603	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011494	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30b(miR-30b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000441	Peripheral blood mononuclear cells	-	Host	Protein	MAPK14	http://www.ncbi.nlm.nih.gov/gene/1432	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011495	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30b(miR-30b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000441	Peripheral blood mononuclear cells	Downregulation	Host	Protein	CASP3(caspase-3)	http://www.ncbi.nlm.nih.gov/gene/836	Upregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	In our study, CASP3 was significantly upregulated by qRT-PCR analysis(Figure  6) and targeted by the downregulated miRNAs: miR-342-3p, miR-29b, miR-29c, miR-29a, let-7g and miR-34b, which can be expected to develop miRNA-based therapeutics for influenza.
HHID00011496	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30b(miR-30b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000441	Peripheral blood mononuclear cells	Downregulation	Host	Protein	EGFR	http://www.ncbi.nlm.nih.gov/gene/1956	Upregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	We found that EGFR was regulated by miR-342, miR-155, miR-30b, miR-210, miR-192, let-7g, and miR-146b-5p, which were all down expressed in H1N1 critically ill patients.These downregulated miRNAs can upregulate EGFR expression, resulting in easier virus replication and propagation at the early stage of infection. .
HHID00011497	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30d(miR-30d)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000255	A549 cells	-	Host	mRNA	AXL	http://www.ncbi.nlm.nih.gov/gene/558	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011498	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30d(miR-30d)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000255	A549 cells	-	Host	mRNA	BIRC3	http://www.ncbi.nlm.nih.gov/gene/330	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011499	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30d(miR-30d)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000255	A549 cells	-	Host	mRNA	BU857004	http://www.ncbi.nlm.nih.gov/gene/6533	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011500	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30d(miR-30d)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000255	A549 cells	-	Host	mRNA	CCNB2	http://www.ncbi.nlm.nih.gov/gene/9133	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011501	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30d(miR-30d)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000255	A549 cells	-	Host	mRNA	CDCA8	http://www.ncbi.nlm.nih.gov/gene/55143	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011502	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30d(miR-30d)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000255	A549 cells	-	Host	mRNA	DEPDC1B	http://www.ncbi.nlm.nih.gov/gene/55789	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011503	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30d(miR-30d)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000255	A549 cells	-	Host	mRNA	INCENP	http://www.ncbi.nlm.nih.gov/gene/3619	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011504	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30d(miR-30d)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000255	A549 cells	-	Host	mRNA	KIF11	http://www.ncbi.nlm.nih.gov/gene/3832	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011505	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30d(miR-30d)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000255	A549 cells	-	Host	mRNA	RAD23B	http://www.ncbi.nlm.nih.gov/gene/5887	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011506	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30d(miR-30d)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000255	A549 cells	-	Host	mRNA	SLC6A6	http://www.ncbi.nlm.nih.gov/gene/6533	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011507	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-30d(miR-30d)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000255	A549 cells	-	Host	mRNA	ZCCHC16(MAR4)	http://www.ncbi.nlm.nih.gov/gene/340595	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011508	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-31(miR-31)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000089	Peripheral blood mononuclear cells	-	Host	Protein	MAPK11	http://www.ncbi.nlm.nih.gov/gene/5600	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011509	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-31(miR-31)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000089	Peripheral blood mononuclear cells	-	Host	Protein	MAPK13	http://www.ncbi.nlm.nih.gov/gene/5603	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011510	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-31(miR-31)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000089	Peripheral blood mononuclear cells	-	Host	Protein	MAPK14	http://www.ncbi.nlm.nih.gov/gene/1432	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011511	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-31(miR-31)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000089	Peripheral blood mononuclear cells	-	Host	mRNA	FOXP3	http://www.ncbi.nlm.nih.gov/gene/50943	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	Our miRNA microarray and RT-PCR analysis revealed that miR-31 was significantly down-expressed in PBMCs of H1N1 critically ill patients.MiR-31 can negatively regulate FOXP3 expression by binding directly to its potential target site in the 3'UTR of FOXP3 mRNA.
HHID00011512	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-342(miR-342)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000805	Peripheral blood mononuclear cells	Downregulation	Host	Protein	EGFR	http://www.ncbi.nlm.nih.gov/gene/1956	Upregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	We found that EGFR was regulated by miR-342, miR-155, miR-30b, miR-210, miR-192, let-7g, and miR-146b-5p, which were all down expressed in H1N1 critically ill patients.These downregulated miRNAs can upregulate EGFR expression, resulting in easier virus replication and propagation at the early stage of infection. .
HHID00011513	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-342(miR-342-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000805	Peripheral blood mononuclear cells	Downregulation	Host	Protein	CASP3(caspase-3)	http://www.ncbi.nlm.nih.gov/gene/836	Upregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	In our study, CASP3 was significantly upregulated by qRT-PCR analysis(Figure  6) and targeted by the downregulated miRNAs: miR-342-3p, miR-29b, miR-29c, miR-29a, let-7g and miR-30b, which can be expected to develop miRNA-based therapeutics for influenza disease.
HHID00011514	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-342-3p(miR-342-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000805	Peripheral blood mononuclear cells	Downregulation	Host	mRNA	Mx1	http://www.ncbi.nlm.nih.gov/gene/4599	Downregulation	Predicted.	23731466	In our study, we found that Mx1 mRNA was significantly upregulated in H1N1 critically ill patients by qRT-PCR assay. No validated miRNA targeting Mx1 has been reported; thus,Our miRNA target prediction result indicated that Mx1 can be negatively regulated by miR-342-3p and miR-210, which were both down expressed in H1N1 critically ill patient.
HHID00011515	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-361(miR-361-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000760	Peripheral blood mononuclear cells	-	Host	Protein	MAPK13	http://www.ncbi.nlm.nih.gov/gene/5603	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011516	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-361(miR-361-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000760	Peripheral blood mononuclear cells	-	Host	Protein	MAPK14	http://www.ncbi.nlm.nih.gov/gene/1432	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011517	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-361-3p(miR-361-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000760	Peripheral blood mononuclear cells	-	Host	Protein	MAPK11	http://www.ncbi.nlm.nih.gov/gene/5600	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011518	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-362(miR-362-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000762	Peripheral blood mononuclear cells	-	Host	Protein	MAPK13	http://www.ncbi.nlm.nih.gov/gene/5603	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011519	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-362(miR-362-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000762	Peripheral blood mononuclear cells	-	Host	Protein	MAPK14	http://www.ncbi.nlm.nih.gov/gene/1432	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011520	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-362-3p(miR-362-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000762	Peripheral blood mononuclear cells	-	Host	Protein	MAPK11	http://www.ncbi.nlm.nih.gov/gene/5600	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011521	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-451a(miR-451)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001729	-	Upregulation	Host	Protein	CCL3	http://www.ncbi.nlm.nih.gov/gene/6348	-	RT-PCR.	23169590	We used quantitative RT-PCR to confirm that miR-451 is increased following influenza infection for 8 hours. miR-451 regulates dendritic cell cytokine responses to influenza infection. Inhibition of miR-451 expression correlated with increased YWHAZ protein expression and decreased ZFP36 expression, providing a possible mechanism for the elevated secretion of IL-6, TNF, CCL5/RANTES, and CCL3/MIP1 alpha.
HHID00011522	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-451a(miR-451)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001729	-	Upregulation	Host	Protein	CCL5	http://www.ncbi.nlm.nih.gov/gene/6352	-	RT-PCR.	23169590	We used quantitative RT-PCR to confirm that miR-451 is increased following influenza infection for 8 hours. miR-451 regulates dendritic cell cytokine responses to influenza infection. Inhibition of miR-451 expression correlated with increased YWHAZ protein expression and decreased ZFP36 expression, providing a possible mechanism for the elevated secretion of IL-6, TNF, CCL5/RANTES, and CCL3/MIP1 alpha.
HHID00011523	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-451a(miR-451)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001729	-	Upregulation	Host	Protein	IL-6	http://www.ncbi.nlm.nih.gov/gene/3569	-	RT-PCR.	23169590	We used quantitative RT-PCR to confirm that miR-451 is increased following influenza infection for 8 hours. miR-451 regulates dendritic cell cytokine responses to influenza infection. Inhibition of miR-451 expression correlated with increased YWHAZ protein expression and decreased ZFP36 expression, providing a possible mechanism for the elevated secretion of IL-6, TNF, CCL5/RANTES, and CCL3/MIP1 alpha.
HHID00011524	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-451a(miR-451)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001729	-	Upregulation	Host	Protein	YWHAZ	http://www.ncbi.nlm.nih.gov/gene/7534	Downregulation	RT-PCR.	23169590	We used quantitative RT-PCR to confirm that miR-451 is increased following influenza infection for 8 hours. miR-451 regulates dendritic cell cytokine responses to influenza infection. Inhibition of miR-451 expression correlated with increased YWHAZ protein expression and decreased ZFP36 expression, providing a possible mechanism for the elevated secretion of IL-6, TNF, CCL5/RANTES, and CCL3/MIP1 alpha.
HHID00011525	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-451a(miR-451)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001729	-	Upregulation	Host	Protein	ZFP36	http://www.ncbi.nlm.nih.gov/gene/7538	Upregulation	RT-PCR.	23169590	We used quantitative RT-PCR to confirm that miR-451 is increased following influenza infection for 8 hours. miR-451 regulates dendritic cell cytokine responses to influenza infection. Inhibition of miR-451 expression correlated with increased YWHAZ protein expression and decreased ZFP36 expression, providing a possible mechanism for the elevated secretion of IL-6, TNF, CCL5/RANTES, and CCL3/MIP1 alpha.
HHID00011526	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	ABCG1	http://www.ncbi.nlm.nih.gov/gene/9619	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011527	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	AGTR1	http://www.ncbi.nlm.nih.gov/gene/185	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011528	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	ANGPTL4	http://www.ncbi.nlm.nih.gov/gene/51129	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011529	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	ANXA13	http://www.ncbi.nlm.nih.gov/gene/312	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011530	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	CA9	http://www.ncbi.nlm.nih.gov/gene/768	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011531	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	CAPN12	http://www.ncbi.nlm.nih.gov/gene/147968	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011532	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	CPS1	http://www.ncbi.nlm.nih.gov/gene/1373	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011533	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	CRELD1	http://www.ncbi.nlm.nih.gov/gene/78987	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011534	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	FCGBP	http://www.ncbi.nlm.nih.gov/gene/8857	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011535	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	FGA	http://www.ncbi.nlm.nih.gov/gene/2243	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011536	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	FGB	http://www.ncbi.nlm.nih.gov/gene/2244	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011537	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	FGL1	http://www.ncbi.nlm.nih.gov/gene/2267	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011538	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	FILIP1	http://www.ncbi.nlm.nih.gov/gene/27145	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011539	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	FLJ31568	-	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011540	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	FOS	http://www.ncbi.nlm.nih.gov/gene/2353	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011541	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	ITGA2	http://www.ncbi.nlm.nih.gov/gene/3673	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011542	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	KLF2	http://www.ncbi.nlm.nih.gov/gene/10365	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011543	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	LRP5	http://www.ncbi.nlm.nih.gov/gene/4041	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011544	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	MAOA	http://www.ncbi.nlm.nih.gov/gene/4128	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011545	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	MTUS1	http://www.ncbi.nlm.nih.gov/gene/57509	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011546	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	NCALD	http://www.ncbi.nlm.nih.gov/gene/83988	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011547	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	OCEL1	http://www.ncbi.nlm.nih.gov/gene/79629	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011548	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	PDE7B	http://www.ncbi.nlm.nih.gov/gene/27115	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011549	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	RAB4B	http://www.ncbi.nlm.nih.gov/gene/53916	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011550	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	RHOB	http://www.ncbi.nlm.nih.gov/gene/388	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011551	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	SCARA5	http://www.ncbi.nlm.nih.gov/gene/286133	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011552	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	SH3PXD2A	http://www.ncbi.nlm.nih.gov/gene/9644	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011553	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	SLC29A4	http://www.ncbi.nlm.nih.gov/gene/222962	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011554	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	SLP1	http://www.ncbi.nlm.nih.gov/gene/9399	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011555	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	SMOC1	http://www.ncbi.nlm.nih.gov/gene/64093	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011556	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	STEAP2	http://www.ncbi.nlm.nih.gov/gene/261729	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011557	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	TCN1	http://www.ncbi.nlm.nih.gov/gene/6947	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011558	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	TM7SF2	http://www.ncbi.nlm.nih.gov/gene/7108	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011559	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	TRIM9	http://www.ncbi.nlm.nih.gov/gene/114088	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011560	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	TSC22D3	http://www.ncbi.nlm.nih.gov/gene/1831	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011561	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-766	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003836	A549 cells	-	Host	mRNA	TTLL6	http://www.ncbi.nlm.nih.gov/gene/284076	-	Predicted.	22438559	Fig 3 The 8-hpi network shows a number of deregulated miRNAs and their predicted targets, including miR-766, that is consistently upregulated throughout infection with H1N1. Fig 3 The network displays predicted interactions between deregulated miRNAs and deregulated mRNAs from two microarray experiments and were generated using a fold-change cutoff ±2, P <0.05, miRanda target prediction, GenMiR++ scoring, and negative-correlation filtering. Red indicates upregulated miRNAs and mRNAs, while blue indicates downregulation.
HHID00011562	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-769(miR-769-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003834	Peripheral blood mononuclear cells	-	Host	Protein	MAPK11	http://www.ncbi.nlm.nih.gov/gene/5600	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011563	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-769(miR-769-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003834	Peripheral blood mononuclear cells	-	Host	Protein	MAPK13	http://www.ncbi.nlm.nih.gov/gene/5603	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011564	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-769(miR-769-5p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003834	Peripheral blood mononuclear cells	-	Host	Protein	MAPK14	http://www.ncbi.nlm.nih.gov/gene/1432	Downregulation	RNA isolation and quality control,MiRNA expression profiling,Microarray data submission,QRT-PCR,Receiver operating characteristic (ROC) analysis,MiRNA target prediction,Protein-protein interaction,Enrichment analysis and network construction.	23731466	P38 MAPKs(MAPK11, MAPK13, and MAPK14) were found to be regulated by miR-769-5p, miR-146b-5p, let-7g, miR-30b, miR-31, miR-361-3p, and miR-362-3p, which were all down expressed in H1N1 critically ill patients.
HHID00011565	Influenza A virus H1N1(H1N1)	Mus musculus	Host	miRNA	mmu-let-7g(let-7g)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000137	A549 cells and primary cultured T cells	-	Host	Protein	Interleukin 13(IL-13)	http://www.ncbi.nlm.nih.gov/gene/3596	Downregulation	In silico identification of microRNA binding sites,Cell culture and transfection,Cell culture and transfection,RNA extraction and RT-PCR,RNA extraction and RT-PCR,RNA extraction and RT-PCR,Development of the ovalbumin-sensitized murine model of asthma and treatment of mice with let-7,MicroRNA design and delivery,Measurement of AHR,Measurement of cytokine (IL-4, IL-5, IL-13, and IFN-γ) levels in culture supernatant and lung homogenate and estimation of differential count in bronchoalveolar lavage fluid,Lung histology,Statistical analysis.	23731466	Moreover,let-7g could inhibit the expression of IL-13, a key inducer of airway inflammation secreted by TH2 lymphocytes and other cells.
HHID00011566	Influenza A virus H1N1(H1N1)	Mus musculus	Host	miRNA	mmu-mir-29a(miR-29a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000576	CD4+ T cells	Downregulation	Host	Protein	Tbx21(T-bet)	http://www.ncbi.nlm.nih.gov/gene/57765	Downregulation	T Cell Stimulation and Transfection,miRNA Screening and Analysis,Adoptive Transfer and LCMV Infection,Microarray Procedures and Analysis,Luciferase Reporter Assays.	23731466	Both miR-29a and miR-29b could repress IFN-gamma production by direct targeting of both T-box transcription factor T-bet and Eomesodermin(Eomes), two transcription factors known to induce IFN-gamma production.
HHID00011567	Influenza A virus H1N1(H1N1)	Mus musculus	Host	miRNA	mmu-mir-29b-1(miR-29b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000143	CD4+ T cells	Downregulation	Host	Protein	Eomes	http://www.ncbi.nlm.nih.gov/gene/13813	Downregulation	T Cell Stimulation and Transfection,miRNA Screening and Analysis,Adoptive Transfer and LCMV Infection,Microarray Procedures and Analysis,Luciferase Reporter Assays.	23731466	Both miR-29a and miR-29b could repress IFN-gamma production by direct targeting of both T-box transcription factor T-bet and Eomesodermin(Eomes), two transcription factors known to induce IFN-gamma production.
HHID00011568	Influenza A virus H3N2(H3N2)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	ABL2	http://www.ncbi.nlm.nih.gov/gene/27	Downregulation	RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011569	Influenza A virus H3N2(H3N2)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	BCL11A	http://www.ncbi.nlm.nih.gov/gene/53335		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011570	Influenza A virus H3N2(H3N2)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	BCORL1	http://www.ncbi.nlm.nih.gov/gene/63035		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011571	Influenza A virus H3N2(H3N2)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	CARD10	http://www.ncbi.nlm.nih.gov/gene/29775		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011572	Influenza A virus H3N2(H3N2)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	DNPEP	http://www.ncbi.nlm.nih.gov/gene/23549		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011573	Influenza A virus H3N2(H3N2)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	FLOT2	http://www.ncbi.nlm.nih.gov/gene/2319		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011574	Influenza A virus H3N2(H3N2)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	GALNT10	http://www.ncbi.nlm.nih.gov/gene/55568		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011575	Influenza A virus H3N2(H3N2)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	IRAK1(IRAK-1)	http://www.ncbi.nlm.nih.gov/gene/3654		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011576	Influenza A virus H3N2(H3N2)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	KBTBD3	http://www.ncbi.nlm.nih.gov/gene/143879		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011577	Influenza A virus H3N2(H3N2)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	KDM6B(JMJD3)	http://www.ncbi.nlm.nih.gov/gene/23135		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011578	Influenza A virus H3N2(H3N2)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	LFNG	http://www.ncbi.nlm.nih.gov/gene/3955		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011579	Influenza A virus H3N2(H3N2)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	SLC2A3	http://www.ncbi.nlm.nih.gov/gene/6515		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011580	Influenza A virus H3N2(H3N2)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	STRA13	http://www.ncbi.nlm.nih.gov/gene/201254		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011581	Influenza A virus H3N2(H3N2)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	STRBP	http://www.ncbi.nlm.nih.gov/gene/55342		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011582	Influenza A virus H3N2(H3N2)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	SYT1	http://www.ncbi.nlm.nih.gov/gene/6857		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011583	Influenza A virus H3N2(H3N2)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung epithelial cells	Upregulation	Host	Protein	ZNF532	http://www.ncbi.nlm.nih.gov/gene/55205		RT-qPCR.	23343627	In this study, we performed miRNA global profiling in human lung epithelial cells(A549) infected by two different subtypes of human influenza A viruses(H1N1 and H3N2). Among the five miRNA hits, the only upregulated miRNA in response to influenza infection corresponded to miR-146a.Table 1. Gene expression data for the 16 miR-146a target genes down-modulated after influenza infection.
HHID00011584	Influenza A virus H5N1(H5N1)	Homo sapiens	Host	miRNA	hsa-mir-141(miR-141)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000457	Epithelial cells	Upregulation	Host	Protein	TGFB2(TGF-beta2)	http://www.ncbi.nlm.nih.gov/gene/7042	Downregulation	Enzyme-linked immunosorbent assay (ELISA), qRT-PCR, gene expression profiles.	23663545	Interestingly,we demonstrated that miR-141, which was more highly induced by H5N1 than by H1N1(p < 0.05), had an ability to suppress the expression of a cytokine - transforming growth factor(TGF)-beta2.Since TGF-beta2 is an important cytokine that can act as both an immunosuppressive agent and a potent proinflammatory molecule through its ability to attract and regulate inflammatory molecules, and previous report showed that only seasonal influenza H1N1(but not the other avian influenza subtypes) could induce a persistent expression of TGF-beta2, we speculate that the modulation of TGF-beta2 expression by different influenza subtypes via miR-141 might be a critical step for determining the outcome of either normal or excessive inflammation progression.
HHID00011585	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-1275(miR-1275)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006415	Lung cell lines	-	Host	mRNA	AK3	http://www.ncbi.nlm.nih.gov/gene/50808	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011586	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-1275(miR-1275)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006415	Lung cell lines	-	Host	mRNA	CALU	http://www.ncbi.nlm.nih.gov/gene/813	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011587	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-1275(miR-1275)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006415	Lung cell lines	-	Host	mRNA	DCBLD2	http://www.ncbi.nlm.nih.gov/gene/131566	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011588	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-1275(miR-1275)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006415	Lung cell lines	-	Host	mRNA	DPYSL3	http://www.ncbi.nlm.nih.gov/gene/1809	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011589	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-1275(miR-1275)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006415	Lung cell lines	-	Host	mRNA	ESYT2	http://www.ncbi.nlm.nih.gov/gene/57488	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011590	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-1275(miR-1275)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006415	Lung cell lines	-	Host	mRNA	IRAK1	http://www.ncbi.nlm.nih.gov/gene/3654	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011591	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-1275(miR-1275)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006415	Lung cell lines	-	Host	mRNA	MAPK3	http://www.ncbi.nlm.nih.gov/gene/5595	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011592	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-1275(miR-1275)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006415	Lung cell lines	-	Host	mRNA	PPP1R14B	http://www.ncbi.nlm.nih.gov/gene/26472	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011593	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	AK3	http://www.ncbi.nlm.nih.gov/gene/50808	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011594	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	BRI3	http://www.ncbi.nlm.nih.gov/gene/25798	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011595	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	CALU	http://www.ncbi.nlm.nih.gov/gene/813	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011596	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	DAZAP2	http://www.ncbi.nlm.nih.gov/gene/9802	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011597	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	DCBLD2	http://www.ncbi.nlm.nih.gov/gene/131566	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011598	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	DPY19L1	http://www.ncbi.nlm.nih.gov/gene/23333	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011599	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	DPYSL3	http://www.ncbi.nlm.nih.gov/gene/1809	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011600	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	EIF2S3	http://www.ncbi.nlm.nih.gov/gene/1968	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011601	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	ESYT2	http://www.ncbi.nlm.nih.gov/gene/57488	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011602	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	MAPK3	http://www.ncbi.nlm.nih.gov/gene/5595	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011603	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	MMGT1	http://www.ncbi.nlm.nih.gov/gene/93380	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011604	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	NAP1L1	http://www.ncbi.nlm.nih.gov/gene/4673	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011605	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	NDUFB10	http://www.ncbi.nlm.nih.gov/gene/4716	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011606	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	PAIP2	http://www.ncbi.nlm.nih.gov/gene/51247	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011607	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	SDF2	http://www.ncbi.nlm.nih.gov/gene/6388	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011608	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	STMN1	http://www.ncbi.nlm.nih.gov/gene/3925	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011609	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	TMEM136	http://www.ncbi.nlm.nih.gov/gene/219902	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011610	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	TSPAN6	http://www.ncbi.nlm.nih.gov/gene/7105	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011611	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-132(miR-132)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000449	Lung cell lines	-	Host	mRNA	YWHAG	http://www.ncbi.nlm.nih.gov/gene/7532	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011612	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung cell lines	-	Host	mRNA	IRAK1	http://www.ncbi.nlm.nih.gov/gene/3654	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011613	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung cell lines	-	Host	mRNA	CALU	http://www.ncbi.nlm.nih.gov/gene/813	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011614	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung cell lines	-	Host	mRNA	COPS8	http://www.ncbi.nlm.nih.gov/gene/10920	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011615	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung cell lines	-	Host	mRNA	ESYT2	http://www.ncbi.nlm.nih.gov/gene/57488	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011616	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung cell lines	-	Host	mRNA	TIMM17B	http://www.ncbi.nlm.nih.gov/gene/10245	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011617	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung cell lines	-	Host	mRNA	TMEM136	http://www.ncbi.nlm.nih.gov/gene/219902	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011618	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Lung cell lines	-	Host	mRNA	TOR1A	http://www.ncbi.nlm.nih.gov/gene/1861	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011619	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-187(miR-187)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000274	Lung cell lines	-	Host	mRNA	TMEM136	http://www.ncbi.nlm.nih.gov/gene/219902	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011620	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-200c(miR-200c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000650	Lung cell lines	-	Host	mRNA	CALU	http://www.ncbi.nlm.nih.gov/gene/813	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011621	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-200c(miR-200c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000650	Lung cell lines	-	Host	mRNA	COPS8	http://www.ncbi.nlm.nih.gov/gene/10920	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011622	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-200c(miR-200c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000650	Lung cell lines	-	Host	mRNA	DCBLD2	http://www.ncbi.nlm.nih.gov/gene/131566	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011623	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-200c(miR-200c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000650	Lung cell lines	-	Host	mRNA	DPY19L1	http://www.ncbi.nlm.nih.gov/gene/23333	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011624	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-200c(miR-200c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000650	Lung cell lines	-	Host	mRNA	ESYT2	http://www.ncbi.nlm.nih.gov/gene/57488	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011625	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-200c(miR-200c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000650	Lung cell lines	-	Host	mRNA	MMGT1	http://www.ncbi.nlm.nih.gov/gene/93380	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011626	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-200c(miR-200c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000650	Lung cell lines	-	Host	mRNA	NAP1L1	http://www.ncbi.nlm.nih.gov/gene/4673	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011627	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-200c(miR-200c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000650	Lung cell lines	-	Host	mRNA	PAIP2	http://www.ncbi.nlm.nih.gov/gene/51247	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011628	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-200c(miR-200c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000650	Lung cell lines	-	Host	mRNA	YWHAG	http://www.ncbi.nlm.nih.gov/gene/7532	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011629	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-29c(miR-29c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	A549 cells	Upregulation	Host	mRNA	BCL2L2	http://www.ncbi.nlm.nih.gov/gene/599	-	Predicted.	22850539	In silico target prediction analysis revealed complementarity of miR-29c to the 3'-untranslated region (UTR) of BCL2L2 mRNA. Targeting of BCL2L2 3' UTR by miR-29c was determined by luciferase assay.
HHID00011630	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-7(miR-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000263	Lung cell lines	-	Host	mRNA	AK3	http://www.ncbi.nlm.nih.gov/gene/50808	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011631	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-7(miR-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000263	Lung cell lines	-	Host	mRNA	CALU	http://www.ncbi.nlm.nih.gov/gene/813	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011632	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-7(miR-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000263	Lung cell lines	-	Host	mRNA	DAZAP2	http://www.ncbi.nlm.nih.gov/gene/9802	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011633	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-7(miR-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000263	Lung cell lines	-	Host	mRNA	DCBLD2	http://www.ncbi.nlm.nih.gov/gene/131566	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011634	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-7(miR-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000263	Lung cell lines	-	Host	mRNA	DPYSL3	http://www.ncbi.nlm.nih.gov/gene/1809	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011635	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-7(miR-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000263	Lung cell lines	-	Host	mRNA	EIF2S3	http://www.ncbi.nlm.nih.gov/gene/1968	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011636	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-7(miR-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000263	Lung cell lines	-	Host	mRNA	MTPN	http://www.ncbi.nlm.nih.gov/gene/136319	Downregulation	Reverse Transcription, Real-time PCR, Immunoblotting, RNA Purification, Indirect Immunofluorescence, MicroRNA Microarray Analysis, Gene Expression Profiling and Pathway Analysis, and miRNA Analysis.	22822053	Table2 Abundance ofmiRNA targetedmRNAs during influenza A virus infection. However, data analysis identi-fied 36 genes that were differentially expressed during infection in the presence of miRNA mimics: decreased expression was Observed for 26 genes, whereas 10 genes increased expression (greater than 1.5-fold threshold, see Table 2).Examination of miRNA abundance in human lung cell lines revealed endogenous miRNAs, including miR-7, miR-132, miR-146a, miR-187, miR-200c, and miR-1275.Gene expression profiling identified 26 cellular mRNAs targeted by these miRNAs, including IRAK1, MAPK3, and other components of innate immune signaling systems.
HHID00011637	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	has-mir-608(hsa-miR-608)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003621	HEK293 and HeLa cells	-	Host	Protein	IL6(hIL6)	http://www.ncbi.nlm.nih.gov/gene/3569	Downregulation	Immunohistochemistry and Immunofluorescence, qRT-PCR, Transient cotransfection, ELISA, Western blot analysis, RNA-protein pulldown assay, In vitro transcription/translation assay, In situ hybridization.	21984125	We show a direct repression of vIL6 by hsa-miR-1293 and hIL6 by hsa-miR-608. The repression of vIL6 by miR-1293 was reversed by disruption of the vIL6 miR-1293 seed match through the introduction of point mutations. In addition, expression of vIL6 or hIL6 in KSHV-infected cells could be enhanced by transfection of the respective miRNA inhibitors.
HHID00011638	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Human Umbilical Vein Endothelial Cells	Upregulation	Host	Protein	CXCR4	http://www.ncbi.nlm.nih.gov/gene/7852	Downregulation	Statistical Analysis, Luciferase Reporter Assay, Quantitative Real-time PCR.	20023696	Kaposi's sarcoma(KS)-associated herpesvirus(KSHV)-encoded viral FLICE inhibitory protein(vFLIP) K13 is a potent activator of the nuclear factor-kappaB(NF-kappaB) pathway. Our results show that K13-induced NF-kappaB activity suppresses CXCR4 through upregulation of miR-146a.
HHID00011639	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	-	-	Host	Protein	AGTRAP	http://www.ncbi.nlm.nih.gov/gene/57085	-	Predicted.	18075594	Suppl. Table 3.List of shared targets for miR-K12-11 and miR-155 validated in this study.The remaining genes were included based on our microarray analysis of miR-K12-11 expressing BJAB cells.
HHID00011640	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	-	-	Host	Protein	HIVEP2	http://www.ncbi.nlm.nih.gov/gene/3097	-	Predicted.	18075594	Suppl. Table 3.List of shared targets for miR-K12-11 and miR-155 validated in this study.The remaining genes were included based on our microarray analysis of miR-K12-11 expressing BJAB cells.
HHID00011641	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	-	-	Host	Protein	IKBKE	http://www.ncbi.nlm.nih.gov/gene/9641	-	Predicted.	18075594	Suppl. Table 3.List of shared targets for miR-K12-11 and miR-155 validated in this study.BACH1, IKBKE,MAP3K10, MLSTD2 and RPS6KA3 were included because they are predicted targets for miR-155.
HHID00011642	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	-	-	Host	Protein	MAP3K10	http://www.ncbi.nlm.nih.gov/gene/4294	-	Predicted.	18075594	Suppl. Table 3.List of shared targets for miR-K12-11 and miR-155 validated in this study.The remaining genes were included based on our microarray analysis of miR-K12-11 expressing BJAB cells.
HHID00011643	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	-	-	Host	Protein	MLSTD2	http://www.ncbi.nlm.nih.gov/gene/84188	-	Predicted.	18075594	Suppl. Table 3.List of shared targets for miR-K12-11 and miR-155 validated in this study.The remaining genes were included based on our microarray analysis of miR-K12-11 expressing BJAB cells.
HHID00011644	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	-	-	Host	Protein	PIK3CA	http://www.ncbi.nlm.nih.gov/gene/5290	-	Predicted.	18075594	Suppl. Table 3.List of shared targets for miR-K12-11 and miR-155 validated in this study.The remaining genes were included based on our microarray analysis of miR-K12-11 expressing BJAB cells.
HHID00011645	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	-	-	Host	Protein	RFK	http://www.ncbi.nlm.nih.gov/gene/55312	-	Predicted.	18075594	Suppl. Table 3.List of shared targets for miR-K12-11 and miR-155 validated in this study.The remaining genes were included based on our microarray analysis of miR-K12-11 expressing BJAB cells.
HHID00011646	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	-	-	Host	Protein	RPS6KA3	http://www.ncbi.nlm.nih.gov/gene/6197	-	Predicted.	18075594	Suppl. Table 3.List of shared targets for miR-K12-11 and miR-155 validated in this study.BACH1, IKBKE,MAP3K10, MLSTD2 and RPS6KA3 were included because they are predicted targets for miR-155.
HHID00011647	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	-	-	Host	Protein	SAMHD1	http://www.ncbi.nlm.nih.gov/gene/25939	-	Predicted.	18075594	Suppl. Table 3.List of shared targets for miR-K12-11 and miR-155 validated in this study.The remaining genes were included based on our microarray analysis of miR-K12-11 expressing BJAB cells.
HHID00011648	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	-	-	Host	Protein	SLA	http://www.ncbi.nlm.nih.gov/gene/6503	-	Predicted.	18075594	Suppl. Table 3.List of shared targets for miR-K12-11 and miR-155 validated in this study.Of these, HIVEP2 and SLA are also predicted targets for miR-155.
HHID00011649	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	-	-	Host	Protein	TWF1	http://www.ncbi.nlm.nih.gov/gene/5756	-	Predicted.	18075594	Suppl. Table 3.List of shared targets for miR-K12-11 and miR-155 validated in this study.The remaining genes were included based on our microarray analysis of miR-K12-11 expressing BJAB cells.
HHID00011650	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	-	-	Host	Protein	XAF1(BIRC4BP)	http://www.ncbi.nlm.nih.gov/gene/54739	-	Predicted.	18075594	Suppl. Table 3.List of shared targets for miR-K12-11 and miR-155 validated in this study.The remaining genes were included based on our microarray analysis of miR-K12-11 expressing BJAB cells.
HHID00011651	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	B-cell	-	Host	mRNA	BRIP1(BACH-1)	http://www.ncbi.nlm.nih.gov/gene/83990	Downregulation	Luciferase assays,Northern blot analysis,Microarray.	17881434	Bioinformatic tools predicted the transcriptional repressor BACH-1 to be targeted by both miRNAs, and ectopic expression of either miR-155 or miR-K12-11 inhibited a BACH-1 3'UTR-containing reporter. Furthermore, BACH-1 protein levels are low in cells expressing either miRNA.Kaposi's sarcoma-associated herpesvirus (KSHV), a virus linked to malignancies including primary effusion lymphoma (PEL), encodes 12 miRNA genes, but only a few regulatory targets are known. We found that KSHV-miR-K12-11 shares 100% seed sequence homology with hsa-miR-155.
HHID00011652	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BCP-1,BC-1,VG-1,JSC-1,RAJI,BCBL-1,and BJAB cell lines	-	Host	Protein	LDOC1	http://www.ncbi.nlm.nih.gov/gene/23641	Downregulation	RNA extraction for RT-PCR, Affymetrix array-based gene expression profiling, Cell lines and transfections, Northern blot analysis, Immunoblotting, Luciferase assays.	17881434	We observed a significant inhibition of luciferase from reporters containing the 3'UTRs of LDOC1, MATR3, and TM6SF1 in the presence of miR-155 or miR-K12-11. In contrast, neither miRNA had any effect on the PHF17 or NFAT2CIP 3'UTRs.Thus, these assays confirmed LDOC1, MATR3, and TM6SF1 as being targets of both miR-155 and miR-K12-11.
HHID00011653	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BCP-1,BC-1,VG-1,JSC-1,RAJI,BCBL-1,and BJAB cell lines	-	Host	Protein	MATR3	http://www.ncbi.nlm.nih.gov/gene/9782	Downregulation	RNA extraction for RT-PCR, Affymetrix array-based gene expression profiling, Cell lines and transfections, Northern blot analysis, Immunoblotting, Luciferase assays.	17881434	We observed a significant inhibition of luciferase from reporters containing the 3'UTRs of LDOC1, MATR3, and TM6SF1 in the presence of miR-155 or miR-K12-11. In contrast, neither miRNA had any effect on the PHF17 or NFAT2CIP 3'UTRs.Thus, these assays confirmed LDOC1, MATR3, and TM6SF1 as being targets of both miR-155 and miR-K12-11.
HHID00011654	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BCP-1,BC-1,VG-1,JSC-1,RAJI,BCBL-1,and BJAB cell lines	-	Host	Protein	TM6SF1	http://www.ncbi.nlm.nih.gov/gene/53346	Downregulation	RNA extraction for RT-PCR, Affymetrix array-based gene expression profiling, Cell lines and transfections, Northern blot analysis, Immunoblotting, Luciferase assays.	17881434	We observed a significant inhibition of luciferase from reporters containing the 3'UTRs of LDOC1, MATR3, and TM6SF1 in the presence of miR-155 or miR-K12-11. In contrast, neither miRNA had any effect on the PHF17 or NFAT2CIP 3'UTRs. Thus, these assays confirmed LDOC1, MATR3, and TM6SF1 as being targets of both miR-155 and miR-K12-11.
HHID00011655	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	ABHD6(NA)	http://www.ncbi.nlm.nih.gov/gene/57406		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011656	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	AGTRAP	http://www.ncbi.nlm.nih.gov/gene/57085		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011657	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	AMOTL1	http://www.ncbi.nlm.nih.gov/gene/154810		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011658	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	ARHGAP21	http://www.ncbi.nlm.nih.gov/gene/57584		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011659	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	ARRDC2	http://www.ncbi.nlm.nih.gov/gene/27106		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011660	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	ATP6V1G1	http://www.ncbi.nlm.nih.gov/gene/9550		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011661	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	BMI1	http://www.ncbi.nlm.nih.gov/gene/648		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011662	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	C10orf35	http://www.ncbi.nlm.nih.gov/gene/219738		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011663	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	C9orf116	http://www.ncbi.nlm.nih.gov/gene/138162		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011664	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	C9orf78	http://www.ncbi.nlm.nih.gov/gene/51759		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011665	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	CARD6	http://www.ncbi.nlm.nih.gov/gene/84674		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011666	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	CDC42EP3	http://www.ncbi.nlm.nih.gov/gene/10602		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011667	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	CSNK1G2	http://www.ncbi.nlm.nih.gov/gene/1455		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011668	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	CSNK1G2(NA)	http://www.ncbi.nlm.nih.gov/gene/1455		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011669	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	DCAMKL1	http://www.ncbi.nlm.nih.gov/gene/9201		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011670	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	DPY19L1	http://www.ncbi.nlm.nih.gov/gene/23333		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011671	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	E2F3	http://www.ncbi.nlm.nih.gov/gene/1871		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011672	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	ERMAP	http://www.ncbi.nlm.nih.gov/gene/114625		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011673	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	FAM70A	http://www.ncbi.nlm.nih.gov/gene/55026		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011674	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	FBXO33(NA)	http://www.ncbi.nlm.nih.gov/gene/254170		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011675	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	FOS	http://www.ncbi.nlm.nih.gov/gene/2353		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011676	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	GALT	http://www.ncbi.nlm.nih.gov/gene/2592		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011677	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	GBA2	http://www.ncbi.nlm.nih.gov/gene/57704		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011678	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	GPSM2	http://www.ncbi.nlm.nih.gov/gene/29899		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011679	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	HIVEP2	http://www.ncbi.nlm.nih.gov/gene/3097		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011680	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	HMGCS1	http://www.ncbi.nlm.nih.gov/gene/3157		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011681	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	HSPA5	http://www.ncbi.nlm.nih.gov/gene/3309		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011682	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	IKIP	http://www.ncbi.nlm.nih.gov/gene/121457		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011683	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	KIAA0408(NA)	http://www.ncbi.nlm.nih.gov/gene/9729		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011684	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	MADH6	http://www.ncbi.nlm.nih.gov/gene/4091		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011685	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	MGC13057	http://www.ncbi.nlm.nih.gov/gene/84281		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011686	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	MRGPRF	http://www.ncbi.nlm.nih.gov/gene/219928		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011687	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	MUC20	http://www.ncbi.nlm.nih.gov/gene/200958		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011688	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	MYB	http://www.ncbi.nlm.nih.gov/gene/4602		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011689	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	MYO1D	http://www.ncbi.nlm.nih.gov/gene/4642		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011690	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	PICALM	http://www.ncbi.nlm.nih.gov/gene/8301		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011691	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	PIK3CA	http://www.ncbi.nlm.nih.gov/gene/5290		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011692	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	PITPNM2	http://www.ncbi.nlm.nih.gov/gene/57605		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011693	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	PLEKHA5	http://www.ncbi.nlm.nih.gov/gene/54477		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011694	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	PLEKHB2	http://www.ncbi.nlm.nih.gov/gene/55041		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011695	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	POLE3	http://www.ncbi.nlm.nih.gov/gene/54107		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011696	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	PRPF4B(NA)	http://www.ncbi.nlm.nih.gov/gene/8899		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011697	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	PTDSS1	http://www.ncbi.nlm.nih.gov/gene/9791		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011698	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	RFK	http://www.ncbi.nlm.nih.gov/gene/55312		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011699	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	RIPK5	http://www.ncbi.nlm.nih.gov/gene/25778		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011700	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	RNF123	http://www.ncbi.nlm.nih.gov/gene/63891		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011701	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	RNF166	http://www.ncbi.nlm.nih.gov/gene/115992		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011702	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	RNF213(NA)	http://www.ncbi.nlm.nih.gov/gene/57674		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011703	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	RNF31	http://www.ncbi.nlm.nih.gov/gene/55072		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011704	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	RXRA	http://www.ncbi.nlm.nih.gov/gene/6256		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011705	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	SAMHD1	http://www.ncbi.nlm.nih.gov/gene/25939		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011706	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	SCAMP1	http://www.ncbi.nlm.nih.gov/gene/9522		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011707	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	SEC13	http://www.ncbi.nlm.nih.gov/gene/6396		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011708	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	SGK	http://www.ncbi.nlm.nih.gov/gene/6446		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011709	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	SGPL1	http://www.ncbi.nlm.nih.gov/gene/8879		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011710	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	SLA	http://www.ncbi.nlm.nih.gov/gene/6503		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011711	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	SLC33A1	http://www.ncbi.nlm.nih.gov/gene/9197		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011712	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	TAF12	http://www.ncbi.nlm.nih.gov/gene/6883		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011713	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	TLE4	http://www.ncbi.nlm.nih.gov/gene/7091		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011714	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	TRIP13	http://www.ncbi.nlm.nih.gov/gene/9319		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011715	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	TWF1	http://www.ncbi.nlm.nih.gov/gene/5756		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011716	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	USP8	http://www.ncbi.nlm.nih.gov/gene/9101		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011717	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	WEE1	http://www.ncbi.nlm.nih.gov/gene/7465		Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011718	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	BJAB cells	-	Host	Protein	XAF1(BIRC4BP)	http://www.ncbi.nlm.nih.gov/gene/54739	Downregulation	Predicted.	18075594	We therefore manually checked mRNAs that were significantly downregulated for additional seed matches using the Entrez database. Downregulated mRNAs carrying a >6 nt seed match to miR-K12?11 were considered candidate direct targets and are listed in Suppl. Table 1.
HHID00011719	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-34a(miR-34a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000268	Lymphoblastoid cell lines	-	Host	Protein	TP53(P53)	http://www.ncbi.nlm.nih.gov/gene/7157	-	Growth experiments/Western blotting/Quantitative real-time(qRT) PCR.	22496226	However,one miRNA described as a p53-targeted tumor suppressor, miR-34a, was strongly induced by EBV infection and expressed in many EBV and Kaposi's sarcoma-associated herpesvirus(KSHV)-infected lymphoma cell lines.
HHID00011720	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-608(hsa-miR-608)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003621	HEK293 and HeLa cells	-	Host	Protein	IL-6(hIL6)	http://www.ncbi.nlm.nih.gov/gene/3569	Downregulation	Immunohistochemistry and Immunofluorescence, qRT-PCR, Transient cotransfection, ELISA, Western blot analysis.	21984125	We show a direct repression of vIL6 by hsa-miR-1293 and hIL6 by hsa-miR-608. The repression of vIL6 by miR-1293 was reversed by disruption of the vIL6 miR-1293 seed match through the introduction of point mutations. In addition, expression of vIL6 or hIL6 in KSHV-infected cells could be enhanced by transfection of the respective miRNA inhibitors.
HHID00011721	Marek's disease virus(MDV)	Gallus gallus	Host	miRNA	gga-mir-26a(gga-miR-26a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001187	Chicken lymphoma cells	Downregulation	Host	Protein	IL-2	http://www.ncbi.nlm.nih.gov/gene/373958	-	Analysis of miRNA expression, Analysis of IL-2 expression, reporter and biochemical assays.	20441582	The expression levels of gga-miR-26a in chicken lymphoma cells transformed by 3 distinct avian oncogenic viruses, viz Marek's disease virus (MDV), avian leukosis virus (ALV) and Reticuloendotheliosis virus (REV) were consistently downregulated compared to the levels in the normal lymphocytes. We demonstrate the additional role of this miRNA in directly targeting chicken IL-2 through reporter and biochemical assays. The downregulation of miR-26a can relieve the suppressive effect of this miRNA on IL-2 expression.
HHID00011722	Marek's disease virus 1(MDV-1)	Gallus gallus	Host	miRNA	gga-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001176	Ovary,fibroblast cell line.	-	Host	Protein	CEBPE(C/EBP)	http://www.ncbi.nlm.nih.gov/gene/396185	-	RNA isolation and miRNA northern blotting analysis, Luciferase reporter assays.	20680360	We showed that mdv1-miR-M4-5P and miR-155 efficiently targeted a common set of 3' untranslated regions(3'UTR) of six cellular genes(GPM6B, RREB1, c-Myb, MAP3K7IP2, PU.1 and C/EBP).
HHID00011723	Marek's disease virus 1(MDV-1)	Gallus gallus	Host	miRNA	gga-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001176	Ovary,fibroblast cell line.	-	Host	Protein	GPM6B	http://www.ncbi.nlm.nih.gov/gene/418632	-	RNA isolation and miRNA northern blotting analysis, Luciferase reporter assays.	20680360	We showed that mdv1-miR-M4-5P and miR-155 efficiently targeted a common set of 3' untranslated regions(3'UTR) of six cellular genes(GPM6B, RREB1, c-Myb, MAP3K7IP2, PU.1 and C/EBP).
HHID00011724	Marek's disease virus 1(MDV-1)	Gallus gallus	Host	miRNA	gga-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001176	Ovary,fibroblast cell line.	-	Host	Protein	MYB(c-Myb)	http://www.ncbi.nlm.nih.gov/gene/396244	-	RNA isolation and miRNA northern blotting analysis, Luciferase reporter assays.	20680360	We showed that mdv1-miR-M4-5P and miR-155 efficiently targeted a common set of 3' untranslated regions(3'UTR) of six cellular genes(GPM6B, RREB1, c-Myb, MAP3K7IP2, PU.1 and C/EBP).
HHID00011725	Marek's disease virus 1(MDV-1)	Gallus gallus	Host	miRNA	gga-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001176	Ovary,fibroblast cell line.	-	Host	Protein	RREB1	http://www.ncbi.nlm.nih.gov/gene/395920	-	RNA isolation and miRNA northern blotting analysis, Luciferase reporter assays.	20680360	We showed that mdv1-miR-M4-5P and miR-155 efficiently targeted a common set of 3' untranslated regions(3'UTR) of six cellular genes(GPM6B, RREB1, c-Myb, MAP3K7IP2, PU.1 and C/EBP).
HHID00011726	Marek's disease virus 1(MDV-1)	Gallus gallus	Host	miRNA	gga-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001176	Ovary,fibroblast cell line.	-	Host	Protein	TAB2(MAP3K7IP2)	http://www.ncbi.nlm.nih.gov/gene/421622	-	RNA isolation and miRNA northern blotting analysis, Luciferase reporter assays.	20680360	We showed that mdv1-miR-M4-5P and miR-155 efficiently targeted a common set of 3' untranslated regions(3'UTR) of six cellular genes(GPM6B, RREB1, c-Myb, MAP3K7IP2, PU.1 and C/EBP).
HHID00011727	Marek's disease virus(MDV)	Gallus gallus	Host	miRNA	gga-mir-181a(gga-miR-181a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001218	Liver cells	-	Host	Protein	IGF2BP3	http://www.ncbi.nlm.nih.gov/gene/420617	-	Luciferase reporter gene assay.	23226446	To investigate host miRNA expression profiles in the tumor transformation phase of MDV infection, we performed deep sequencing in two MDV-infected samples. The luciferase reporter gene assay showed interactions of gga-miR-181a with MYBL1, gga-miR-181a with IGF2BP3, and gga-miR-26a with EIF3A.
HHID00011728	Marek's disease virus(MDV)	Gallus gallus	Host	miRNA	gga-mir-26a(gga-miR-26a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001187	Liver cells	-	Host	Protein	EIF3A	http://www.ncbi.nlm.nih.gov/gene/423927	-	Luciferase reporter gene assay.	23226446	To investigate host miRNA expression profiles in the tumor transformation phase of MDV infection, we performed deep sequencing in two MDV-infected samples. The luciferase reporter gene assay showed interactions of gga-miR-181a with MYBL1, gga-miR-181a with IGF2BP3, and gga-miR-26a with EIF3A.
HHID00011729	Moloney murine leukemia virus(MoMuLV)	Mus musculus	Host	miRNA	mmu-mir-15a(miRNA-15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000564	-	-	Host	Protein	BCL2	http://www.ncbi.nlm.nih.gov/gene/12043	-	Microarray analysis, Western blot analysis, Statistical analysis, RT-PCR.	20201611	The retrovirus ts1 is a mutant of Moloney murine leukemia virus (MoMuLV) that causes neurodegeneration (ND) in susceptible mice.Our data showed that GVT treatment of ts1-infected mice significantly increased their expression of Bcl-2 and VEGF in brainstem compared with ts1-infected untreated mice. We also studied the expression of specific microRNAs (miRNAs) such as miRNA-15 and -16 (targeting Bcl-2), and miRNA-20 (targeting VEGF). We found that the expression of miRNAs inversely correlated with the upregulation of their target proteins in ts1-infected untreated as well as in GVT-treated-ts1-infected mice.
HHID00011730	Moloney murine leukemia virus(MoMuLV)	Mus musculus	Host	miRNA	mmu-mir-15b(miRNA-15)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000140	Thymus-bone marrow cellline(TB cells)	-	Host	Protein	BCL2	http://www.ncbi.nlm.nih.gov/gene/12043	-	Microarray analysis, Western blot analysis, Statistical analysis, RT-PCR.	20201611	The retrovirus ts1 is a mutant of Moloney murine leukemia virus (MoMuLV) that causes neurodegeneration (ND) in susceptible mice.Our data showed that GVT treatment of ts1-infected mice significantly increased their expression of Bcl-2 and VEGF in brainstem compared with ts1-infected untreated mice. We also studied the expression of specific microRNAs (miRNAs) such as miRNA-15 and -16 (targeting Bcl-2), and miRNA-20 (targeting VEGF). We found that the expression of miRNAs inversely correlated with the upregulation of their target proteins in ts1-infected untreated as well as in GVT-treated-ts1-infected mice.
HHID00011731	Moloney murine leukemia virus(MoMuLV)	Mus musculus	Host	miRNA	mmu-mir-16(miRNA-16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000565	Thymus-bone marrow cellline(TB cells)	-	Host	Protein	BCL2	http://www.ncbi.nlm.nih.gov/gene/12043	-	Microarray analysis, Western blot analysis, Statistical analysis, RT-PCR.	20201611	The retrovirus ts1 is a mutant of Moloney murine leukemia virus (MoMuLV) that causes neurodegeneration (ND) in susceptible mice.Our data showed that GVT treatment of ts1-infected mice significantly increased their expression of Bcl-2 and VEGF in brainstem compared with ts1-infected untreated mice. We also studied the expression of specific microRNAs (miRNAs) such as miRNA-15 and -16 (targeting Bcl-2), and miRNA-20 (targeting VEGF). We found that the expression of miRNAs inversely correlated with the upregulation of their target proteins in ts1-infected untreated as well as in GVT-treated-ts1-infected mice.
HHID00011732	Moloney murine leukemia virus(MoMuLV)	Mus musculus	Host	miRNA	mmu-mir-20a(miRNA-20)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000568	Thymus-bone marrow cellline(TB cells)	-	Host	Protein	VEGF	http://www.ncbi.nlm.nih.gov/gene/22339	-	Microarray analysis, Western blot analysis, Statistical analysis, RT-PCR.	20201611	The retrovirus ts1 is a mutant of Moloney murine leukemia virus (MoMuLV) that causes neurodegeneration (ND) in susceptible mice.Our data showed that GVT treatment of ts1-infected mice significantly increased their expression of Bcl-2 and VEGF in brainstem compared with ts1-infected untreated mice. We also studied the expression of specific microRNAs (miRNAs) such as miRNA-15 and -16 (targeting Bcl-2), and miRNA-20 (targeting VEGF). We found that the expression of miRNAs inversely correlated with the upregulation of their target proteins in ts1-infected untreated as well as in GVT-treated-ts1-infected mice.
HHID00011733	Moloney murine leukemia virus(MoMuLV)	Mus musculus	Host	miRNA	mmu-mir-20b(miRNA-20)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003536	Thymus-bone marrow cellline(TB cells)	-	Host	Protein	VEGF	http://www.ncbi.nlm.nih.gov/gene/22339	-	Microarray analysis, Western blot analysis, Statistical analysis, RT-PCR.	20201611	The retrovirus ts1 is a mutant of Moloney murine leukemia virus (MoMuLV) that causes neurodegeneration (ND) in susceptible mice.Our data showed that GVT treatment of ts1-infected mice significantly increased their expression of Bcl-2 and VEGF in brainstem compared with ts1-infected untreated mice. We also studied the expression of specific microRNAs (miRNAs) such as miRNA-15 and -16 (targeting Bcl-2), and miRNA-20 (targeting VEGF). We found that the expression of miRNAs inversely correlated with the upregulation of their target proteins in ts1-infected untreated as well as in GVT-treated-ts1-infected mice.
HHID00011734	Porcine reproductive and respiratory syndrome virus(PRRSV)	Sus scrofa	Host	miRNA	ssc-mir-125b(miR-125b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0013172	MARC-145 cell line and primary porcine alveolar macrophages	Downregulation	Host	Protein	NFKB	#	-	Western blot assays.	23409058	Mechanistically,miR-125b did not target the PRRSV genome. Rather, it inhibited activation of NFKB, which we found to be required for PRRSV replication.PRRSV, in turn, down-regulated miR-125b expression post-infection to promote viral replication.
HHID00011735	Human respiratory syncytial virus(RSV)	Homo sapiens	Host	miRNA	hsa-let-7f(let-7f)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000067	A549	-	Host	Protein	CCL7	http://www.ncbi.nlm.nih.gov/gene/6354	Downregulation	qPCR for validation of miRNA microarray data,Computational analysis of miRNA targets,Luc–UTR reporter plasmid design and Luc reporter assays,RISC immunoprecipitation assays,miRNA transfections and virus replication and plaque assays.	22894925	In this study, it was shown that RSV infection of a human alveolar epithelial cell line (A549) induced five miRNAs (let-7f, miR-24, miR-337-3p, miR-26b and miR-520a-5p) and repressed two miRNAs (miR-198 and miR-595), and showed that RSV G protein triggered let-7f expression. Luciferase-untranslated region reporters and miRNA mimics and inhibitors validated the predicted targets, which included cell-cycle genes (CCND1, DYRK2 and ELF4), a chemokine gene (CCL7) and the suppressor of cytokine signalling 3 gene (SOCS3).
HHID00011736	Human respiratory syncytial virus(RSV)	Homo sapiens	Host	miRNA	hsa-let-7f(let-7f)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000067	A549	-	Host	Protein	CCND1	http://www.ncbi.nlm.nih.gov/gene/595	Downregulation	qPCR for validation of miRNA microarray data,Computational analysis of miRNA targets,Luc–UTR reporter plasmid design and Luc reporter assays,RISC immunoprecipitation assays,miRNA transfections and virus replication and plaque assays.	22894925	In this study, it was shown that RSV infection of a human alveolar epithelial cell line (A549) induced five miRNAs (let-7f, miR-24, miR-337-3p, miR-26b and miR-520a-5p) and repressed two miRNAs (miR-198 and miR-595), and showed that RSV G protein triggered let-7f expression. Luciferase-untranslated region reporters and miRNA mimics and inhibitors validated the predicted targets, which included cell-cycle genes (CCND1, DYRK2 and ELF4), a chemokine gene (CCL7) and the suppressor of cytokine signalling 3 gene (SOCS3).
HHID00011737	Human respiratory syncytial virus(RSV)	Homo sapiens	Host	miRNA	hsa-let-7f(let-7f)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000067	A549	-	Host	Protein	DYRK2	http://www.ncbi.nlm.nih.gov/gene/8445	Downregulation	qPCR for validation of miRNA microarray data,Computational analysis of miRNA targets,Luc–UTR reporter plasmid design and Luc reporter assays,RISC immunoprecipitation assays,miRNA transfections and virus replication and plaque assays.	22894925	In this study, it was shown that RSV infection of a human alveolar epithelial cell line (A549) induced five miRNAs (let-7f, miR-24, miR-337-3p, miR-26b and miR-520a-5p) and repressed two miRNAs (miR-198 and miR-595), and showed that RSV G protein triggered let-7f expression. Luciferase-untranslated region reporters and miRNA mimics and inhibitors validated the predicted targets, which included cell-cycle genes (CCND1, DYRK2 and ELF4), a chemokine gene (CCL7) and the suppressor of cytokine signalling 3 gene (SOCS3).
HHID00011738	Human respiratory syncytial virus(RSV)	Homo sapiens	Host	miRNA	hsa-let-7f(let-7f)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000067	A549	-	Host	Protein	ELF4	http://www.ncbi.nlm.nih.gov/gene/2000	Downregulation	qPCR for validation of miRNA microarray data,Computational analysis of miRNA targets,Luc–UTR reporter plasmid design and Luc reporter assays,RISC immunoprecipitation assays,miRNA transfections and virus replication and plaque assays.	22894925	In this study, it was shown that RSV infection of a human alveolar epithelial cell line (A549) induced five miRNAs (let-7f, miR-24, miR-337-3p, miR-26b and miR-520a-5p) and repressed two miRNAs (miR-198 and miR-595), and showed that RSV G protein triggered let-7f expression. Luciferase-untranslated region reporters and miRNA mimics and inhibitors validated the predicted targets, which included cell-cycle genes (CCND1, DYRK2 and ELF4), a chemokine gene (CCL7) and the suppressor of cytokine signalling 3 gene (SOCS3).
HHID00011739	Human respiratory syncytial virus(RSV)	Homo sapiens	Host	miRNA	hsa-let-7f(let-7f)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000067	A549	-	Host	Protein	SOCS3	http://www.ncbi.nlm.nih.gov/gene/9021	Downregulation	qPCR for validation of miRNA microarray data,Computational analysis of miRNA targets,Luc–UTR reporter plasmid design and Luc reporter assays,RISC immunoprecipitation assays,miRNA transfections and virus replication and plaque assays.	22894925	In this study, it was shown that RSV infection of a human alveolar epithelial cell line (A549) induced five miRNAs (let-7f, miR-24, miR-337-3p, miR-26b and miR-520a-5p) and repressed two miRNAs (miR-198 and miR-595), and showed that RSV G protein triggered let-7f expression. Luciferase-untranslated region reporters and miRNA mimics and inhibitors validated the predicted targets, which included cell-cycle genes (CCND1, DYRK2 and ELF4), a chemokine gene (CCL7) and the suppressor of cytokine signalling 3 gene (SOCS3).
HHID00011740	Human respiratory syncytial virus(RSV)	Homo sapiens	Host	miRNA	hsa-mir-221(miR-221)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000298	Bronchial epithelial cells	Downregulation	Host	Protein	NGF	http://www.ncbi.nlm.nih.gov/gene/4803	Downregulation	Confocal microscopy, Virus titration, FACS, qPCR, miRNA analysis, Statistical analysis, Transfection.	22272270	Among the selected miRNAs, miR-221 was significantly downregulation by RSV and its transfection in bronchial epithelial cells maximally inhibited gene and protein expression of NGF and TrKA, increased apoptotic cell death, and reduced viral replication and infectivity.
HHID00011741	Human respiratory syncytial virus(RSV)	Homo sapiens	Host	miRNA	hsa-mir-221(miR-221)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000298	Bronchial epithelial cells	Downregulation	Host	Protein	NTRK1(TrKA)	http://www.ncbi.nlm.nih.gov/gene/4914	Downregulation	Confocal microscopy, Virus titration, FACS, qPCR, miRNA analysis, Statistical analysis, Transfection.	22272270	Among the selected miRNAs, miR-221 was significantly downregulation by RSV and its transfection in bronchial epithelial cells maximally inhibited gene and protein expression of NGF and TrKA, increased apoptotic cell death, and reduced viral replication and infectivity.
HHID00011742	Human respiratory syncytial virus(RSV)	Homo sapiens	Host	miRNA	hsa-mir-24(miR-24)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000080	A549	-	Host	Protein	DYRK2	http://www.ncbi.nlm.nih.gov/gene/8445	Downregulation	qPCR for validation of miRNA microarray data,Computational analysis of miRNA targets,Luc–UTR reporter plasmid design and Luc reporter assays,RISC immunoprecipitation assays,miRNA transfections and virus replication and plaque assays.	22894925	In this study, it was shown that RSV infection of a human alveolar epithelial cell line (A549) induced five miRNAs (let-7f, miR-24, miR-337-3p, miR-26b and miR-520a-5p) and repressed two miRNAs (miR-198 and miR-595), and showed that RSV G protein triggered let-7f expression. Luciferase-untranslated region reporters and miRNA mimics and inhibitors validated the predicted targets, which included cell-cycle genes (CCND1, DYRK2 and ELF4), a chemokine gene (CCL7) and the suppressor of cytokine signalling 3 gene (SOCS3).
HHID00011743	Reticuloendotheliosis virus(REV)	Gallus gallus	Host	miRNA	gga-mir-26a(gga-miR-26a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001187	Chicken lymphoma cells	Downregulation	Host	Protein	IL-2	http://www.ncbi.nlm.nih.gov/gene/373958	-	Analysis of miRNA expression, Analysis of IL-2 expression, reporter and biochemical assays.	20441582	The expression levels of gga-miR-26a in chicken lymphoma cells transformed by 3 distinct avian oncogenic viruses, viz Marek's disease virus (MDV), avian leukosis virus (ALV) and Reticuloendotheliosis virus (REV) were consistently downregulated compared to the levels in the normal lymphocytes. We demonstrate the additional role of this miRNA in directly targeting chicken IL-2 through reporter and biochemical assays. The downregulation of miR-26a can relieve the suppressive effect of this miRNA on IL-2 expression.
HHID00011744	Simian immunodeficiency virus(SIV)	Simian	Host	miRNA	miR-142-3p	#	HEK293T cells	Upregulation	Host	Protein	SIRT1	#	Downregulation	Luciferase reporter assays.	23752207	qRT-PCR revealed up-regulation of miR-142-3p (6.4-fold) and -5p (3.9-fold) and down-regulation of SIRT1 (33-fold) in macrophages/microglia from animals with SIVE.
HHID00011745	Simian immunodeficiency virus(SIV)	Simian	Host	miRNA	miR-142-5p	#	HEK293T cells	Upregulation	Host	Protein	SIRT1	#	Downregulation	Luciferase reporter assays.	23752207	qRT-PCR revealed up-regulation of miR-142-3p (6.4-fold) and -5p (3.9-fold) and down-regulation of SIRT1 (33-fold) in macrophages/microglia from animals with SIVE.
HHID00011746	Soybean mosaic virus(SMV)	Glycine max	Host	miRNA	gma-miR160(miR160)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001774	Stem-loop	Upregulation	Host	Protein	ARF	http://www.ncbi.nlm.nih.gov/gene/547532	-	5'-RACE analysis.	23328897	In our experiments, miR160 and miR393 were up-regulated after SMV infection. Auxin response factor(ARF) is a class of transcription factors that play a role in plant signal transduction and development. miR160, miR167 and miR390 all target ARFs, directly or indirectly. we predicted 346 potential targets of these identified miRNAs, and verified 12 targets by modified 5'-RACE analysis. Finally, three miRNAs(miR160, miR393 and miR1510) that are involved in plant resistance were observed to respond to SMV infection.
HHID00011747	Tomato aspermy virus(TAV)	Solanum lycopersicum	Host	miRNA	sly-MIR159(miR159)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0009974	-	-	Host	Protein	MYB	http://www.ncbi.nlm.nih.gov/gene/100125893	Upregulation	Microarray analysis, RT-PCR.	23277401	AGO1 level in CMV-Fny and CMV-Fny-satT1 infections, ARF10, MYB and NAC1 levels in CMV-Fny2b infection, and AP2, MYB and NAC1 levels in TAV-Bj infection were approximately double those of mock-inoculated plants.The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011748	Tomato aspermy virus(TAV)	Solanum lycopersicum	Host	miRNA	sly-MIR164a(miR164)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0027570	-	-	Host	Protein	NAC1	http://www.ncbi.nlm.nih.gov/gene/543917	-	RT-PCR.	21590278	NAC1, HD-ZIP and TCP4, were up-regulated during the pathogenic processes after CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections. NAC1 is regulated by miR164, it has been reported that NAC1 controls lamina outgrowth on a grander scale than that of serrations [24]. Reduction of NAC gene function in a wide range of compound leaved plants reduces the number of leaflet and results in leaflet fusions as well as suppressing serrations [25, 26]. MiR165/166-regulated HD-ZIP is important for establishing the adaxial cell fate during leaf dorso-ventral patterning. MiR319-regulated TCP4 is also indispensable for proper leaf morphogenesis and leaf senescence [24, 27].
HHID00011749	Tomato aspermy virus(TAV)	Solanum lycopersicum	Host	miRNA	sly-MIR164a(miR164)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0027570	-	-	Host	Protein	NAC1	http://www.ncbi.nlm.nih.gov/gene/543917	Upregulation	Microarray analysis, RT-PCR.	23277401	In the closed flower bud, the expression levels of NAC1 were most significantly increased in CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections (RQ >15).The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011750	Tomato aspermy virus(TAV)	Solanum lycopersicum	Host	miRNA	sly-MIR164b(miR164)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0027571	-	-	Host	Protein	NAC1	http://www.ncbi.nlm.nih.gov/gene/543917	-	RT-PCR.	21590278	NAC1, HD-ZIP and TCP4, were up-regulated during the pathogenic processes after CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections. NAC1 is regulated by miR164, it has been reported that NAC1 controls lamina outgrowth on a grander scale than that of serrations [24]. Reduction of NAC gene function in a wide range of compound leaved plants reduces the number of leaflet and results in leaflet fusions as well as suppressing serrations [25, 26]. MiR165/166-regulated HD-ZIP is important for establishing the adaxial cell fate during leaf dorso-ventral patterning. MiR319-regulated TCP4 is also indispensable for proper leaf morphogenesis and leaf senescence [24, 27].
HHID00011751	Tomato aspermy virus(TAV)	Solanum lycopersicum	Host	miRNA	sly-MIR164b(miR164)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0027571	-	-	Host	Protein	NAC1	http://www.ncbi.nlm.nih.gov/gene/543917	Upregulation	Microarray analysis, RT-PCR.	23277401	In the closed flower bud, the expression levels of NAC1 were most significantly increased in CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections (RQ >15).The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011752	Tomato aspermy virus(TAV)	Solanum lycopersicum	Host	miRNA	sly-MIR166a(miR166)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0008358	-	-	Host	Protein	HD-ZIP	http://www.ncbi.nlm.nih.gov/gene/544105	-	RT-PCR.	21590278	NAC1, HD-ZIP and TCP4, were up-regulated during the pathogenic processes after CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections. NAC1 is regulated by miR164, it has been reported that NAC1 controls lamina outgrowth on a grander scale than that of serrations [24]. Reduction of NAC gene function in a wide range of compound leaved plants reduces the number of leaflet and results in leaflet fusions as well as suppressing serrations [25, 26]. MiR165/166-regulated HD-ZIP is important for establishing the adaxial cell fate during leaf dorso-ventral patterning. MiR319-regulated TCP4 is also indispensable for proper leaf morphogenesis and leaf senescence [24, 27].
HHID00011753	Tomato aspermy virus(TAV)	Solanum lycopersicum	Host	miRNA	sly-MIR166b(miR166)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0008359	-	-	Host	Protein	HD-ZIP	http://www.ncbi.nlm.nih.gov/gene/544105	-	RT-PCR.	21590278	NAC1, HD-ZIP and TCP4, were up-regulated during the pathogenic processes after CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections. NAC1 is regulated by miR164, it has been reported that NAC1 controls lamina outgrowth on a grander scale than that of serrations [24]. Reduction of NAC gene function in a wide range of compound leaved plants reduces the number of leaflet and results in leaflet fusions as well as suppressing serrations [25, 26]. MiR165/166-regulated HD-ZIP is important for establishing the adaxial cell fate during leaf dorso-ventral patterning. MiR319-regulated TCP4 is also indispensable for proper leaf morphogenesis and leaf senescence [24, 27].
HHID00011754	Tomato aspermy virus(TAV)	Solanum lycopersicum	Host	miRNA	sly-MIR166c(miR166)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0029105	-	-	Host	Protein	HD-ZIP	http://www.ncbi.nlm.nih.gov/gene/544105	-	RT-PCR.	21590278	NAC1, HD-ZIP and TCP4, were up-regulated during the pathogenic processes after CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections. NAC1 is regulated by miR164, it has been reported that NAC1 controls lamina outgrowth on a grander scale than that of serrations [24]. Reduction of NAC gene function in a wide range of compound leaved plants reduces the number of leaflet and results in leaflet fusions as well as suppressing serrations [25, 26]. MiR165/166-regulated HD-ZIP is important for establishing the adaxial cell fate during leaf dorso-ventral patterning. MiR319-regulated TCP4 is also indispensable for proper leaf morphogenesis and leaf senescence [24, 27].
HHID00011755	Tomato aspermy virus(TAV)	Solanum lycopersicum	Host	miRNA	sly-MIR172a(miR172)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0009976	-	-	Host	Protein	RAV1(AP2)	http://www.ncbi.nlm.nih.gov/gene/101259430	Upregulation	Microarray analysis, RT-PCR.	23277401	AGO1 level in CMV-Fny and CMV-Fny-satT1 infections, ARF10, MYB and NAC1 levels in CMV-Fny2b infection, and AP2, MYB and NAC1 levels in TAV-Bj infection were approximately double those of mock-inoculated plants.The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011756	Tomato aspermy virus(TAV)	Solanum lycopersicum	Host	miRNA	sly-MIR172b(miR172)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0009977	-	-	Host	Protein	RAV1(AP2)	http://www.ncbi.nlm.nih.gov/gene/101259430	Upregulation	Microarray analysis, RT-PCR.	23277401	AGO1 level in CMV-Fny and CMV-Fny-satT1 infections, ARF10, MYB and NAC1 levels in CMV-Fny2b infection, and AP2, MYB and NAC1 levels in TAV-Bj infection were approximately double those of mock-inoculated plants.The transcript levels of SPL, MYB, ARF10, DCL1, NAC1, ARF8, AGO1, SCL and AP2, as targets of miR156, miR159, miR160, miR162, miR164, miR167, miR168, miR171 and miR172 were also quantified using the same RNA preparations.
HHID00011757	Tomato aspermy virus(TAV)	Solanum lycopersicum	Host	miRNA	sly-MIR319a(miR319)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0009978	-	-	Host	Protein	TCP4	http://www.ncbi.nlm.nih.gov/gene/100736453	-	RT-PCR.	21590278	NAC1, HD-ZIP and TCP4, were up-regulated during the pathogenic processes after CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections. NAC1 is regulated by miR164, it has been reported that NAC1 controls lamina outgrowth on a grander scale than that of serrations [24]. Reduction of NAC gene function in a wide range of compound leaved plants reduces the number of leaflet and results in leaflet fusions as well as suppressing serrations [25, 26]. MiR165/166-regulated HD-ZIP is important for establishing the adaxial cell fate during leaf dorso-ventral patterning. MiR319-regulated TCP4 is also indispensable for proper leaf morphogenesis and leaf senescence [24, 27].
HHID00011758	Tomato aspermy virus(TAV)	Solanum lycopersicum	Host	miRNA	sly-MIR319b(miR319)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0029098	-	-	Host	Protein	TCP4	http://www.ncbi.nlm.nih.gov/gene/100736453	-	RT-PCR.	21590278	NAC1, HD-ZIP and TCP4, were up-regulated during the pathogenic processes after CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections. NAC1 is regulated by miR164, it has been reported that NAC1 controls lamina outgrowth on a grander scale than that of serrations [24]. Reduction of NAC gene function in a wide range of compound leaved plants reduces the number of leaflet and results in leaflet fusions as well as suppressing serrations [25, 26]. MiR165/166-regulated HD-ZIP is important for establishing the adaxial cell fate during leaf dorso-ventral patterning. MiR319-regulated TCP4 is also indispensable for proper leaf morphogenesis and leaf senescence [24, 27].
HHID00011759	Tomato aspermy virus(TAV)	Solanum lycopersicum	Host	miRNA	sly-MIR319c(miR319)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0029099	-	-	Host	Protein	TCP4	http://www.ncbi.nlm.nih.gov/gene/100736453	-	RT-PCR.	21590278	NAC1, HD-ZIP and TCP4, were up-regulated during the pathogenic processes after CMV-Fny, CMV-Fny-satT1 and TAV-Bj infections. NAC1 is regulated by miR164, it has been reported that NAC1 controls lamina outgrowth on a grander scale than that of serrations [24]. Reduction of NAC gene function in a wide range of compound leaved plants reduces the number of leaflet and results in leaflet fusions as well as suppressing serrations [25, 26]. MiR165/166-regulated HD-ZIP is important for establishing the adaxial cell fate during leaf dorso-ventral patterning. MiR319-regulated TCP4 is also indispensable for proper leaf morphogenesis and leaf senescence [24, 27].
HHID00011760	Turnip mosaic virus(TuMV)	Brassica napus	Host	miRNA	bra-MIR1885a(bra-MIR1885)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0008302	-	-	Host	Protein	TIR-NBS-LRR	http://www.ncbi.nlm.nih.gov/protein/48762864	-	Analysis of nucleic acids, Plasmid construction, Mapping of miRNA-guided cleavage site and amplification of upstream sequences of mapped target sequences.	18558089	One of the three potential miRNAs, named bra-miR1885, was verified as a true functional miRNA. It could be induced specifically by Turnip mosaic virus(TuMV) infection, and target TIR-NBS-LRR class disease-resistant transcripts for cleavage.
HHID00011761	Vesicular stomatitis virus(VSV)	Cricetulus griseus	Host	miRNA	miR-706	#	BHK cells	-	Host	Protein	CASP3(caspase-3)	http://www.ncbi.nlm.nih.gov/gene/12367	Downregulation	MTT assay, fluorescent microscopy, miRCURY LNA miR microarray analysis, Annexin V-FITC/PI analysis, phase contrast microscopy, miRNA microarray, Overexpression and inhibition of miR-706 in BHK cells, Quantitative real-time PCR, Caspase activity assays.	20625776	A laboratory-attenuated vesicular stomatitis virus induces apoptosis and alters the cellular microRNA expression profile in BHK cells. We further found that miR-706 inhibited VSV-induced apoptosis by decreasing caspase-3 and -9 activation, suggesting that induction of miR-706 expression may be a novel strategy for survival of VSV, allowing it to escape the apoptosis response of the host.
HHID00011762	Vesicular stomatitis virus(VSV)	Cricetulus griseus	Host	miRNA	miR-706	#	BHK cells	-	Host	Protein	Caspase-9	http://www.ncbi.nlm.nih.gov/gene/12371	Downregulation	MTT assay, fluorescent microscopy, miRCURY LNA miR microarray analysis, Annexin V-FITC/PI analysis, phase contrast microscopy, miRNA microarray, Overexpression and inhibition of miR-706 in BHK cells, Quantitative real-time PCR, Caspase activity assays.	20625776	A laboratory-attenuated vesicular stomatitis virus induces apoptosis and alters the cellular microRNA expression profile in BHK cells. We further found that miR-706 inhibited VSV-induced apoptosis by decreasing caspase-3 and 10 activation, suggesting thatuction of miR-706 expression may be a novel strategy for survival of VSV, allowing it to escape the apoptosis response of the host.?ɡ.
HHID00011763	Vesicular stomatitis virus(VSV)	Homo sapiens	Host	miRNA	hsa-mir-548(miRNA-548)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003593	HepG2 cells	-	Host	Protein	ISGs	-	-	Cell culture, transfection, and detection of IFN-λ1 protein,Construction of 3′UTR reporter plasmid and luciferase reporter assay,Reverse transcription reaction and quantitative real-time PCR,Viruses and measurement of viral replication and expression,mRNA decay assay,In vitro cytotoxicity assays.	23150165	The result showed that the inhibitors of miR-548b-5p,miR-548c-5p, miR-548i, and miR-548j increased the IFN-λ1levels. These results showed that the endogenous IFN-λ1 and ISGs were regulated by miR-548.
HHID00011764	Vesicular stomatitis virus(VSV)	Homo sapiens	Host	miRNA	hsa-mir-548(miRNA-548)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003593	HepG2 cells	Downregulation	Host	Protein	IFN-lambda1	http://www.ncbi.nlm.nih.gov/gene/282618	Downregulation	Cell culture, transfection, and detection of IFN-λ1 protein,Construction of 3′UTR reporter plasmid and luciferase reporter assay,Reverse transcription reaction and quantitative real-time PCR,Viruses and measurement of viral replication and expression,mRNA decay assay,In vitro cytotoxicity assays.	23150165	miRNA-548 mimics promoted infection by enteroVirus-71 (EV71) and vesicular stomatitis Virus (VSV), whereas their inhibitors significantly suppressed the replication of EV71 and VSV. Endogenous miRNA-548 levels were suppressed during viral infection. In conclusion, our results suggest that miRNA-548 regulates host antiviral response via direct targeting of IFN-lambda1, which may offer a potential candidate for antiviral therapy.
HVID00011765	Adeno-associated virus(AAV)	Homo sapiens	Host	miRNA	hsa-mir-142-3p(mir-142-3p)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000458	-	-	Virus	Protein	OVA	#	Downregulation	-	23658149	The occurrence of immune responses against OVA transgene following intramuscular delivery by AAV have been described previously and resulted in the loss of OVA protein expression. In the present study, we demonstrate that OVA protein expression was maintained when mir-142-3pT sequences were incorporated into the expression cassette. The sustained expression of OVA protein over time correlated with a reduced increase in anti-OVA antibody levels. Furthermore, no cellular infiltrates were observed in the muscle tissue when AAV1 vectors containing four or eight repeats of mir-142-3p target sequences after the OVA sequence were used.
HVID00011766	Adeno-associated virus(AAV)	Homo sapiens	Host	miRNA	hsa-mir-214(miR-214)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000290	Saos-2 cells	-	Virus	Protein	E1A	http://www.ncbi.nlm.nih.gov/gene/1460853	Downregulation	Luciferase reporter.	22982546	The activity from the same reporter was unchanged in HeLa cells, which display low-level miR-214 expression. Finally, we confirmed that the knockdown of the miR-214 upregulated the productive efficiency of the virus. These findings indicate that cellular miR-214 is capable of inhibiting adenovirus replication by regulating the translation of E1A protein.
HVID00011767	Adeno-associated virus(AAV)	Mus musculus	Host	miRNA	mmu-mir-122(mir-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000256	Liver cells	-	Virus	Protein	E1A	http://www.ncbi.nlm.nih.gov/gene/328572	Downregulation	Luciferase reporter, Real time (quantitative) PCR (Q-PCR).	19461878	Imaging versions of these viruses, produced by fusing E1A with luciferase, showed that inclusion of mir-122 binding sites caused up to 80-fold decreased hepatic expression of E1A following intravenous delivery to mice.
HVID00011768	Ascoviruses	Drosophila melanogaster	Host	miRNA	Hz-miR24	#	HzFB cells	Downregulation	Virus	mRNA	DdRP	#	Downregulation	Northern blot analyses, miRNA microarray analysis, Western blot analysis, RT-qPCR expression analysis, miRNA target studies, RNAi-mediated gene silencing.	19846520	Here, we report changes in expression levels of host miRNAs upon ascovirus infection in an insect cell line and investigated the role of a host miRNA, Hz-miR24, in the host-virus system.The specific miRNA-target interactions were investigated and confirmed using the ectopic expression of Hz-miR24 and a green fluorescent protein-based reporter system. Our functional analysis of Hz-miR24 suggested that it plays an important role in interactions with HvAV-3e by downregulating viral DdRP and DdRPbeta transcripts later in infection.
HVID00011769	Ascoviruses	Drosophila melanogaster	Host	miRNA	Hz-miR24	#	HzFB cells	Downregulation	Virus	mRNA	DdRPbeta	#	Downregulation	Northern blot analyses, miRNA microarray analysis, Western blot analysis, RT-qPCR expression analysis, miRNA target studies, RNAi-mediated gene silencing.	19846520	Here, we report changes in expression levels of host miRNAs upon ascovirus infection in an insect cell line and investigated the role of a host miRNA, Hz-miR24, in the host-virus system.The specific miRNA-target interactions were investigated and confirmed using the ectopic expression of Hz-miR24 and a green fluorescent protein-based reporter system. Our functional analysis of Hz-miR24 suggested that it plays an important role in interactions with HvAV-3e by downregulating viral DdRP and DdRPbeta transcripts later in infection.
HVID00011770	Borna disease virus(BDV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	human oligodendroglial (OL/BDV) cells	Downregulation	Virus	Protein	P	http://www.ncbi.nlm.nih.gov/gene/1494404	-	Luciferase assays.	23428672	Here, we showed that miR-155 was down-regulated in BDV persistently infected human oligodendroglial (OL/BDV) cells and that the BDV P protein, but not the X protein, directly inhibited miR-155 expression in cells. When miR-155 was over-expressed, the inhibition of type I IFNs by BDV in cells was reversed, and the expression of type I IFNs was increased.
HVID00011771	Enterovirus 71(EV71)	Homo sapiens	Host	miRNA	hsa-mir-23b(miR-23b)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000418	-	-	Virus	Protein	VPl	#	Downregulation	Luciferase assay.	23594713	To address this issue, biological software miRanda was first used to predict possible target sites of miR-23b at EV71 gene sequence, then to confirm it by luciferase assay. miR-23b mimics were transfected to verify its effects on infection of EV71. These results suggest that miR-23b and upregulation of miR-23b inhibited the replication of EV71 by targeting at EV71 3'UTR conserved sequence. Taken together, miR-23b could inhibit EV71 replication through downregulation of EV71 VPl protein.
HVID00011772	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-106a(miR-106)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000113	EBV B95-8 LCLs and type III BL cells	-	Virus	Protein	BHRF1	http://www.ncbi.nlm.nih.gov/gene/3783706	-	Western blot analysis, PAR-CLIP, qRT-PCR for RISC-associated BHRF1 mRNAs,Luciferase reporter assays.	24257599	Our analysis revealed binding sites for several cellular miRNAs, particularly the mycregulated miR-17/20/106 family, in the LMP1 and BHRF1 3'UTRs (27).EBV LMP1 and BHRF1 mRNAs are cotargeted by both viral and cellular miRNAs, such as EBV BART miRNAs and the miR-17/20/106 family, in EBV B95-8 LCLs and type III BL cells.
HVID00011773	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-106a(miR-106)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000113	EBV B95-8 LCLs and type III BL cells	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	Western blot analysis, PAR-CLIP, qRT-PCR for RISC-associated BHRF1 mRNAs,Luciferase reporter assays.	24257599	Our analysis revealed binding sites for several cellular miRNAs, particularly the mycregulated miR-17/20/106 family, in the LMP1 and BHRF1 3'UTRs (27).EBV LMP1 and BHRF1 mRNAs are cotargeted by both viral and cellular miRNAs, such as EBV BART miRNAs and the miR-17/20/106 family, in EBV B95-8 LCLs and type III BL cells.
HVID00011774	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-106b(miR-106)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000734	EBV B95-8 LCLs and type III BL cells	-	Virus	Protein	BHRF1	http://www.ncbi.nlm.nih.gov/gene/3783706	-	Western blot analysis, PAR-CLIP, qRT-PCR for RISC-associated BHRF1 mRNAs,Luciferase reporter assays.	24257599	Our analysis revealed binding sites for several cellular miRNAs, particularly the mycregulated miR-17/20/106 family, in the LMP1 and BHRF1 3'UTRs (27).EBV LMP1 and BHRF1 mRNAs are cotargeted by both viral and cellular miRNAs, such as EBV BART miRNAs and the miR-17/20/106 family, in EBV B95-8 LCLs and type III BL cells.
HVID00011775	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-106b(miR-106)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000734	EBV B95-8 LCLs and type III BL cells	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	Western blot analysis, PAR-CLIP, qRT-PCR for RISC-associated BHRF1 mRNAs,Luciferase reporter assays.	24257599	Our analysis revealed binding sites for several cellular miRNAs, particularly the mycregulated miR-17/20/106 family, in the LMP1 and BHRF1 3'UTRs (27).EBV LMP1 and BHRF1 mRNAs are cotargeted by both viral and cellular miRNAs, such as EBV BART miRNAs and the miR-17/20/106 family, in EBV B95-8 LCLs and type III BL cells.
HVID00011776	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-127(hsa-miR-127)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000472	Burkitt lymphoma	Upregulation	Virus	Protein	EBNA1	http://www.ncbi.nlm.nih.gov/gene/3783774	-	Luciferase assay, Quantitative reverse transcription-PCR, Indirect immunofluorescence, Western blotting(WB).	22941339	This study was designed to ascertain whether hsa-miR-127 overexpression in BL is really related to the presence of the virus.We have focused on EBNA1 as the only viral product present in EBV-positive BL. Our results show that the upregulation of hsa-miR-127 is mediated by EBNA1, shedding new light on the function of miRNAs and their regulation by viral products.
HVID00011777	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	-	Downregulation	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	Retroviral infections, RNA isolation, BLAST analysis of miR-146a promoter versus mouse genome, Cellular mRNA microarray analysis, Cellular miRNA microarray analysis, Real-time qRT-PCR for mature miRNA and primary transcript (pri-miRNA), Transfection and luciferase expression analysis, Microarray data accession numbers, Generation of EBV-negative Mutu clones.	18057241	Through miRNA microarray analysis, we demonstrate that LMP1 dysregulates the expression of several cellular miRNAs, including the most highly regulated of these, miR-146a. Quantitative reverse transcription-PCR analysis confirmed induced expression of miR-146a by LMP1. Reporter studies demonstrated that LMP1 induces miR-146a predominantly through two NF-kappaB binding sites in the miR-146a promoter and identified a role for an Oct-1 site in conferring basal and induced expression.
HVID00011778	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	CD4+ T lymphocytes	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	EBV oncoprotein LMP1 dysregulates the expression of several cellular miRNAs. LMP1 induces miR-146a predominantly through two NF-KB-binding sites in the miR-146a promoter.
HVID00011779	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-146a(miRNA-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	NPC cell lines CNE1 and CNE1-GL	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	Immunohistochemical staining/qRT-PCR.	22843060	The expression of miRNA-146a in 16 cases of NPC, 13 cases of chronic nasopharyngitis and cell lines was determined by quantitative reverse transcription polymerase chain reaction (qRT-PCR) analysis. A plasmid containing the luciferase gene under the control of miRNA-146a promoter (pri-miRNA-146a) was constructed and transfected into NPC cells, and the luciferase activity was detected.The results showed that the expression levels of miRNA-146a were positively correlated with that of LMP1 protein expression.
HVID00011780	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	CD4+ T lymphocytes	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	Downregulation	Reporter Assay,Luciferase Reporter,Western blotting.	21152115	EBV LMP1 also induces the production of the BIC (B-cell integration cluster) precursor RNA of cellular miR-155, which is highly expressed in various B-cell lymphomas and may contribute to EBV immortalization of B cells.
HVID00011781	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	NPC Samples	Downregulation	Virus	Protein	LMP-2A(LMP2A)	http://www.ncbi.nlm.nih.gov/gene/3783751	-	Luciferase assay.	23097559	In addition, other miRNAs such as miR-155, enhanced by EBV-encoded LMP1 and LMP2A, are associated with poor prognosis in NPC patients. miRNA expression profiling also confirmed the widespread downregulation of miRNAs in NPC samples compared with the histologically normal nasopharyngeal epithelial tissue.
HVID00011782	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	NPC Samples	Downregulation	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	Luciferase assay.	23097559	In addition, other miRNAs such as miR-155, enhanced by EBV-encoded LMP1 and LMP2A, are associated with poor prognosis in NPC patients. miRNA expression profiling also confirmed the widespread downregulation of miRNAs in NPC samples compared with the histologically normal nasopharyngeal epithelial tissue.
HVID00011783	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-17(miR-17)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000071	EBV B95-8 LCLs and type III BL cells	-	Virus	Protein	BHRF1	http://www.ncbi.nlm.nih.gov/gene/3783706	-	Western blot analysis, PAR-CLIP, qRT-PCR for RISC-associated BHRF1 mRNAs,Luciferase reporter assays.	24257599	Our analysis revealed binding sites for several cellular miRNAs, particularly the mycregulated miR-17/20/106 family, in the LMP1 and BHRF1 3'UTRs (27).EBV LMP1 and BHRF1 mRNAs are cotargeted by both viral and cellular miRNAs, such as EBV BART miRNAs and the miR-17/20/106 family, in EBV B95-8 LCLs and type III BL cells.
HVID00011784	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-17(miR-17)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000071	EBV B95-8 LCLs and type III BL cells	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	Western blot analysis, PAR-CLIP, qRT-PCR for RISC-associated BHRF1 mRNAs,Luciferase reporter assays.	24257599	Our analysis revealed binding sites for several cellular miRNAs, particularly the mycregulated miR-17/20/106 family, in the LMP1 and BHRF1 3'UTRs (27).EBV LMP1 and BHRF1 mRNAs are cotargeted by both viral and cellular miRNAs, such as EBV BART miRNAs and the miR-17/20/106 family, in EBV B95-8 LCLs and type III BL cells.
HVID00011785	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-18a(miR-18a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000072	EBV B95-8 LCLs	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	PAR-CLIP.	24257599	These data suggest that this site in the LMP1 3'UTR also is occupied by cellular miR-18a/b.
HVID00011786	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-18b(miR-18b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001518	EBV B95-8 LCLs	-	Virus	mRNA	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	PAR-CLIP.	24257599	These data suggest that this site in the LMP1 3'UTR also is occupied by cellular miR-18a/b.
HVID00011787	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-20a(miR-20)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000076	EBV B95-8 LCLs and type III BL cells	-	Virus	Protein	BHRF1	http://www.ncbi.nlm.nih.gov/gene/3783706	-	Western blot analysis, PAR-CLIP, qRT-PCR for RISC-associated BHRF1 mRNAs,Luciferase reporter assays.	24257599	Our analysis revealed binding sites for several cellular miRNAs, particularly the mycregulated miR-17/20/106 family, in the LMP1 and BHRF1 3'UTRs (27).EBV LMP1 and BHRF1 mRNAs are cotargeted by both viral and cellular miRNAs, such as EBV BART miRNAs and the miR-17/20/106 family, in EBV B95-8 LCLs and type III BL cells.
HVID00011788	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-20a(miR-20)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000076	EBV B95-8 LCLs and type III BL cells	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	Western blot analysis, PAR-CLIP, qRT-PCR for RISC-associated BHRF1 mRNAs,Luciferase reporter assays.	24257599	Our analysis revealed binding sites for several cellular miRNAs, particularly the mycregulated miR-17/20/106 family, in the LMP1 and BHRF1 3'UTRs (27).EBV LMP1 and BHRF1 mRNAs are cotargeted by both viral and cellular miRNAs, such as EBV BART miRNAs and the miR-17/20/106 family, in EBV B95-8 LCLs and type III BL cells.
HVID00011789	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-20b(miR-20)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001519	EBV B95-8 LCLs and type III BL cells	-	Virus	Protein	BHRF1	http://www.ncbi.nlm.nih.gov/gene/3783706	-	Western blot analysis, PAR-CLIP, qRT-PCR for RISC-associated BHRF1 mRNAs,Luciferase reporter assays.	24257599	Our analysis revealed binding sites for several cellular miRNAs, particularly the mycregulated miR-17/20/106 family, in the LMP1 and BHRF1 3'UTRs (27).EBV LMP1 and BHRF1 mRNAs are cotargeted by both viral and cellular miRNAs, such as EBV BART miRNAs and the miR-17/20/106 family, in EBV B95-8 LCLs and type III BL cells.
HVID00011790	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-20b(miR-20)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001519	EBV B95-8 LCLs and type III BL cells	-	Virus	Protein	LMP1	http://www.ncbi.nlm.nih.gov/gene/3783750	-	Western blot analysis, PAR-CLIP, qRT-PCR for RISC-associated BHRF1 mRNAs,Luciferase reporter assays.	24257599	Our analysis revealed binding sites for several cellular miRNAs, particularly the mycregulated miR-17/20/106 family, in the LMP1 and BHRF1 3'UTRs (27).EBV LMP1 and BHRF1 mRNAs are cotargeted by both viral and cellular miRNAs, such as EBV BART miRNAs and the miR-17/20/106 family, in EBV B95-8 LCLs and type III BL cells.
HVID00011791	Gallid herpesvirus 2(GaHV-2)	Gallus gallus	Host	miRNA	gga-mir-21(gga-miR-21)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004994	Virulent strain(RB-1B),vaccine strain(CVI988).	Upregulation	Virus	Protein	MDV076(Meq)	http://www.ncbi.nlm.nih.gov/gene/4811549	-	Luciferase assays.	23055556	We show here that the viral oncoprotein Meq binds to this promoter, thereby transactivating gga-miR-21 expression. We confirmed that this miRNA targets chicken programmed death cell 4(PDCD4) and promotes tumor cell growth and apoptosis escape. Finally, gga-miR-21 was overexpressed only during infection with a very virulent strain(RB-1B) and not during infection with a nononcogenic strain(CVI988), providing further evidence for its role in GaHV-2 lymphomagenesis. Our data therefore suggest an additional role for Meq in GaHV-2-mediated lymphomagenesis through the induction of miR-21 expression.
HVID00011792	Hepatitis B virus(HBV)	Homo sapiens	Host	LncRNA	HULC	http://www.lncrnadb.org/Detail.aspx?TKeyID=183	Human immortalized normal liver L-O2 cells and hepatoma HepG2 cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Luciferase reporter gene assay and chromatin immunoprecipitation(ChIP) assay.	22685290	Moreover, we revealed that HBx up-regulated HULC in human immortalized normal liver L-O2 cells and hepatoma HepG2 cells. Luciferase reporter gene assay and chromatin immunoprecipitation (ChIP) assay showed that HBx activated the HULC promoter via cAMP-responsive element-binding protein. We further demonstrated that HULC promoted cell proliferation by methyl thiazolyl tetrazolium, 5-ethynyl-2'-deoxyuridine, colony formation assay, and tumorigenicity assay. .
HVID00011793	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7a(let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000060	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011794	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7a(let-7a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000060	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011795	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7a(let-7a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000060	LO2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Immunohistochemistry, Luciferase Reporter Assay, RT-PCR and Western Blot Analysis.	22942717	Because the HBx protein trans-activates various cellular genes  and pathways, we wondered whether HBx might regulate miRNA expression. This was first suggested  in a 2010 study showing that the HBx protein down-regulated let-7a and promoted cell proliferation by targeting signal transducer and activator of transcription 3 (STAT 3). .
HVID00011796	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7b(let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000063	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011797	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7c(let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000064	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011798	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7c(let-7c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000064	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011799	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7d(let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000065	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011800	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7d(let-7d)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000065	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011801	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7e(let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000066	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011802	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7e(let-7e)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000066	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011803	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7f(let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000067	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011804	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7f(let-7f)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000067	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011805	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7g(let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011806	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7g(let-7g)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000433	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011807	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7i(let-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000434	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011808	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-let-7i(let-7i)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000434	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011809	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-miR-125a-5p(miR-125a-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000443	Human liver	-	Virus	Protein	S	http://www.ncbi.nlm.nih.gov/gene/944569	Downregulation	Computational analyses, RT-PCR, TaqMan miRNA assays, Luciferase assays.	21317190	This work shows that hsa-miR-125a-5p, a microRNA expressed in human liver, is able to down-regulate the expression of HBV S gene thus reducing the amount of secreted HBsAg. This effect will likely counteract viral replication, since it is known that (i) the expression levels of HBsAg are correlated with viral titer, and (ii) experimental knockdown of HBsAg leads to suppression of HBV replication .
HVID00011810	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-miR-199a(miR-199a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000242	HepG2 cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011811	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-miR-199a-3p(miR-199a-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000232	HepG2 2.2.15 cells	Upregulation	Virus	Protein	HBVgp2(HBsAg)	http://www.ncbi.nlm.nih.gov/gene/944569	Downregulation	Bioinformatics analysis, real-time PCR, fluorescent reporter assay, ELISA and MTS assay, Western blot.	20728471	Compared to experimental controls, miR-199a-3p and miR-210 efficiently reduced HBsAg expression without affecting HepG2 2.2.15 cell proliferation. Quantification of HBV DNA by real-time PCR showed that both miRNAs suppressed viral replication. Bioinformatics analysis indicated a putative binding site for miR-199a-3p in the HBsAg coding region and a putative binding site for miR-210 in the HBV pre-S1 region. The direct effect of miRNAs on the target region in HBV transcripts was validated by a fluorescent reporter assay, and the suppression of HBs gene expression by both miRNAs was measured by real-time PCR and Western blot.
HVID00011812	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-miR-29c(miR-29c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	HCC cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	Downregulation	Western blot analysis, Luciferase reporter assay, Chromatin immunoprecipitation microarray (ChIP-chip) and ChIP-PCR, Quantitative real-time PCR.	21829663	Interestingly,Ct-HBx bound to and inhibited the transcriptional activity of some of these miRNA promoters. Notably, some of the examined repressed-miRNAs(miR-26a, -29c, -146a and -190) were also significantly down-regulated in a subset of HCC tissues with carboxyl-terminal HBx truncation compared to their matching non-tumor tissues, highlighting the clinical relevance of our data.
HVID00011813	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-miR-338-3p(miR-338-3p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000763	LO2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Immunohistochemistry, Luciferase Reporter Assay, RT-PCR and Western Blot Analysis.	22942717	Overall, this study demonstrates that miR-338-3p inhibits proliferation by regulating CyclinD1, and HBx down-regulates miR-338-3p in HCC. This newly identified miR-338-3p/CyclinD1 .interaction provides novel insights into HBx-mediated hepatocarcinogenesis and may facilitate therapeutic development against HCC.
HVID00011814	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-101(miR-101)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000103	Hepatic cells	Downregulation	Virus	Protein	DNMT3A	http://www.ncbi.nlm.nih.gov/gene/1788	Upregulation	3'-UTR reporter assay.	23124077	The direct target of miR-101, DNA methyltransferase 3A(DNMT3A), was identified in silico and validated using a 3'-UTR reporter assay.  HBx(hepatitis B virus x)-mediated miR-101 down-regulation and DNMT3A up-regulation supported the enhanced DNA methylation of several tumor-suppressor genes in HBx-expressing cells.
HVID00011815	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-101(miR-101)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000103	Hepatic cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	3'-UTR reporter assay.	23124077	The direct target of miR-101, DNA methyltransferase 3A(DNMT3A), was identified in silico and validated using a 3'-UTR reporter assay.  HBx(hepatitis B virus x)-mediated miR-101 down-regulation and DNMT3A up-regulation supported the enhanced DNA methylation of several tumor-suppressor genes in HBx-expressing cells.
HVID00011816	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-106a(miR-106a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000113	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011817	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-106a(miR-106a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000113	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011818	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	Serum	Upregulation	Virus	Protein	HBVgp2(HBsAg)	http://www.ncbi.nlm.nih.gov/gene/944569	-	Reverse transcription-TaqMan PCR(RT-PCR).	23508904	Hepatitis B Virus (HBV) infection is associated with increased expression of microRNA-122.Significant linear correlations were found between microRNA-122 or microRNA-22 and HBsAg levels and ALT levels.Serum microRNA-122 and microRNA-22 levels were analyzed in 198 patients with chronic HBV who underwent liver biopsy and were compared with quantitative measurements of HBsAg, HBeAg, HBV DNA, and other clinical and histological findings. Levels of serum microRNA-122 and microRNA-22 were determined by reverse transcription-TaqMan PCR.
HVID00011819	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	Serum	Upregulation	Virus	Protein	HBVgp4(ALT)	http://www.ncbi.nlm.nih.gov/gene/944568	-	Reverse transcription-TaqMan PCR(RT-PCR).	23508904	Hepatitis B Virus (HBV) infection is associated with increased expression of microRNA-122.Significant linear correlations were found between microRNA-122 or microRNA-22 and HBsAg levels and ALT levels.Serum microRNA-122 and microRNA-22 levels were analyzed in 198 patients with chronic HBV who underwent liver biopsy and were compared with quantitative measurements of HBsAg, HBeAg, HBV DNA, and other clinical and histological findings. Levels of serum microRNA-122 and microRNA-22 were determined by reverse transcription-TaqMan PCR.
HVID00011820	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-125a(miR-125a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000469	HBV-associated HCC tissues	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Western blot analysis, Luciferase reporter assay, Chromatin immunoprecipitation microarray (ChIP-chip) and ChIP-PCR, Quantitative real-time PCR.	21829663	For example, miR-23a and -125a up-regulation as well as miR-19a/b down-regulation by both HBx forms were verified.The differential miRNA expressions were further validated in a cohort of HBV-associated HCC tissues using real-time PCR.
HVID00011821	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-125a(miR-125a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000469	HepG2 cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011822	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-125a(miR-125a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000469	HepG2 cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011823	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-143(miR-143)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000459	Liver cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	miR-143 overexpression in HBx-transfected cells significantly promotes cell migration with no substantial effect on cell proliferation or apoptosis,Thesedata indicate that miR-143 eases HBx-controlled cell migration/invasion both in vitro and in vivo.
HVID00011824	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	HCC cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	Downregulation	Western blot analysis, Luciferase reporter assay, Chromatin immunoprecipitation microarray (ChIP-chip) and ChIP-PCR, Quantitative real-time PCR.	21829663	Interestingly,Ct-HBx bound to and inhibited the transcriptional activity of some of these miRNA promoters. Notably, some of the examined repressed-miRNAs(miR-26a, -29c, -146a and -190) were also significantly down-regulated in a subset of HCC tissues with carboxyl-terminal HBx truncation compared to their matching non-tumor tissues, highlighting the clinical relevance of our data.
HVID00011825	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-16(miR-16)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000070	HepG2, SK-HEP-1, and Huh7 cells.	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Cell transfection, ciferase reporter assay, Cell-cycle analysis, Immunoblots, Cell viability and apoptosis analysis, Reverse-transcription polymerase chain reaction and qRT-PCR, miRNA microarrays.	21629246	Hepatitis B virus X protein altered the in vitro expression of miRNAs in host malignant hepatocytes, particularly downregulating the miR-16 family.
HVID00011826	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-190a(miR-190)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000486	HCC cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	Downregulation	Western blot analysis, Luciferase reporter assay, Chromatin immunoprecipitation microarray (ChIP-chip) and ChIP-PCR, Quantitative real-time PCR.	21829663	Interestingly,Ct-HBx bound to and inhibited the transcriptional activity of some of these miRNA promoters. Notably, some of the examined repressed-miRNAs(miR-26a, -29c, -146a and -190) were also significantly down-regulated in a subset of HCC tissues with carboxyl-terminal HBx truncation compared to their matching non-tumor tissues, highlighting the clinical relevance of our data.
HVID00011827	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-190b(miR-190)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005545	HCC cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	Downregulation	Western blot analysis, Luciferase reporter assay, Chromatin immunoprecipitation microarray (ChIP-chip) and ChIP-PCR, Quantitative real-time PCR.	21829663	Interestingly,Ct-HBx bound to and inhibited the transcriptional activity of some of these miRNA promoters. Notably, some of the examined repressed-miRNAs(miR-26a, -29c, -146a and -190) were also significantly down-regulated in a subset of HCC tissues with carboxyl-terminal HBx truncation compared to their matching non-tumor tissues, highlighting the clinical relevance of our data.
HVID00011828	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-191(miR-191)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000465	HepG2 cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011829	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-191(miR-191)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000465	HepG2 cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011830	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-193b(miR-193b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003137	HepG2 cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011831	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-193b(miR-193b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003137	HepG2 cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011832	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-196a(miR-196a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000238	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011833	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-196a(miR-196a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000238	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011834	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-196b(miR-196b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001150	Liver	Upregulation	Virus	Protein	HBVgp2(S)	http://www.ncbi.nlm.nih.gov/gene/944569	-	miRNA profiling, Solexa-sequencing, Target prediction, Analysis of expression-profile data, Consensus-scoring approach, RT-PCR.	21113793	The miRNAs miR-7, miR196b, miR433, and miR511 target the polymerase or S gene of HBV, miR205 targets the X gene, and miR345 targets the preC gene.The upregulation of miR-7 and miR196b can repress the expression of the DNA polymerase and S proteins and thus influence disease progression. .
HVID00011835	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-199a(miR-199a)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000231	HepG2 cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011836	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-199a(miR-199a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000242	HepG2 cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011837	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-19a(miR-19a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000073	HBV-associated HCC tissues	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Western blot analysis, Luciferase reporter assay, Chromatin immunoprecipitation microarray (ChIP-chip) and ChIP-PCR, Quantitative real-time PCR.	21829663	For example, miR-23a and -125a up-regulation as well as miR-19a/b down-regulation by both HBx forms were verified.The differential miRNA expressions were further validated in a cohort of HBV-associated HCC tissues using real-time PCR.The differential miRNA expressions were further validated in a cohort of HBV-associated HCC tissues using real-time PCR.
HVID00011838	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-19b(miR-19b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000074	HBV-associated HCC tissues	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Western blot analysis, Luciferase reporter assay, Chromatin immunoprecipitation microarray (ChIP-chip) and ChIP-PCR, Quantitative real-time PCR.	21829663	For example, miR-23a and -125a up-regulation as well as miR-19a/b down-regulation by both HBx forms were verified.The differential miRNA expressions were further validated in a cohort of HBV-associated HCC tissues using real-time PCR.The differential miRNA expressions were further validated in a cohort of HBV-associated HCC tissues using real-time PCR.
HVID00011839	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-205(miR-205)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000285	hepatoma cells/HCC tissues	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Luciferase assays.	24576478	We previously reported that HBx suppressed miR-205 in hepatoma cells. .
HVID00011840	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-205(miR205)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000285	Liver cells	-	Virus	Protein	HBVgp3(X)	http://www.ncbi.nlm.nih.gov/gene/944566	-	miRNA profiling, Solexa-sequencing, Target prediction, Analysis of expression-profile data, Consensus-scoring approach, RT-PCR.	21113793	We noted that miR196b and miR205 lack expression signatures in all of the nine liver samples, whereas miR-7, miR345, miR433, and miR511 had low expression counts in all the nine liver samples.The miRNAs miR-7,miR196b, miR433, and miR511 target the DNA polymerase or S gene, whereas miR205 and miR345 target the X and the preC genes, respectively.
HVID00011841	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-20a(miR-20a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000076	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011842	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-20a(miR-20a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000076	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011843	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-210(miR-210)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000286	HepG2 2.2.15 cells	Upregulation	Virus	Protein	HBVgp2(HBsAg)	http://www.ncbi.nlm.nih.gov/gene/944569	Downregulation	Bioinformatics analysis, real-time PCR, fluorescent reporter assay, ELISA and MTS assay, Western blot.	20728471	Compared to experimental controls, miR-199a-3p and miR-210 efficiently reduced HBsAg expression without affecting HepG2 2.2.15 cell proliferation. Quantification of HBV DNA by real-time PCR showed that both miRNAs suppressed viral replication. Bioinformatics analysis indicated a putative binding site for miR-199a-3p in the HBsAg coding region and a putative binding site for miR-210 in the HBV pre-S1 region. The direct effect of miRNAs on the target region in HBV transcripts was validated by a fluorescent reporter assay, and the suppression of HBs gene expression by both miRNAs was measured by real-time PCR and Western blot.
HVID00011844	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-22(miR-22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000078	Serum	Upregulation	Virus	Protein	HBVgp2(HBsAg)	http://www.ncbi.nlm.nih.gov/gene/944569	-	Reverse transcription-TaqMan PCR(RT-PCR).	23508904	Hepatitis B Virus (HBV) infection is associated with increased expression of microRNA-122.Significant linear correlations were found between microRNA-122 or microRNA-22 and HBsAg levels and ALT levels.Serum microRNA-122 and microRNA-22 levels were analyzed in 198 patients with chronic HBV who underwent liver biopsy and were compared with quantitative measurements of HBsAg, HBeAg, HBV DNA, and other clinical and histological findings. Levels of serum microRNA-122 and microRNA-22 were determined by reverse transcription-TaqMan PCR.
HVID00011845	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-22(miR-22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000078	Serum	Upregulation	Virus	Protein	HBVgp4(ALT)	http://www.ncbi.nlm.nih.gov/gene/944568	-	Reverse transcription-TaqMan PCR(RT-PCR).	23508904	Hepatitis B Virus (HBV) infection is associated with increased expression of microRNA-122.Significant linear correlations were found between microRNA-122 or microRNA-22 and HBsAg levels and ALT levels.Serum microRNA-122 and microRNA-22 levels were analyzed in 198 patients with chronic HBV who underwent liver biopsy and were compared with quantitative measurements of HBsAg, HBeAg, HBV DNA, and other clinical and histological findings. Levels of serum microRNA-122 and microRNA-22 were determined by reverse transcription-TaqMan PCR.
HVID00011846	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-23a(miR-23a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000079	HBV-associated HCC tissues	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Western blot analysis, Luciferase reporter assay, Chromatin immunoprecipitation microarray (ChIP-chip) and ChIP-PCR, Quantitative real-time PCR.	21829663	For example, miR-23a and -125a up-regulation as well as miR-19a/b down-regulation by both HBx forms were verified.The differential miRNA expressions were further validated in a cohort of HBV-associated HCC tissues using real-time PCR.
HVID00011847	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-26a(miR-26a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000083	HCC cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	Downregulation	Western blot analysis, Luciferase reporter assay, Chromatin immunoprecipitation microarray (ChIP-chip) and ChIP-PCR, Quantitative real-time PCR.	21829663	Interestingly,Ct-HBx bound to and inhibited the transcriptional activity of some of these miRNA promoters. Notably, some of the examined repressed-miRNAs(miR-26a, -29c, -146a and -190) were also significantly down-regulated in a subset of HCC tissues with carboxyl-terminal HBx truncation compared to their matching non-tumor tissues, highlighting the clinical relevance of our data.
HVID00011848	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	HepG2-X and H7402-X cell lines	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	miR-29a is also important in promoting HBV-HCC progression,and is dramatically upregulated in p21-HBx transgenic mice and in HepG2-X and H7402-X cell lines.miR-29a can ease HBx-induced hepatoma cell migration by modulating PTEN and Akt.
HVID00011849	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-30c(miR-30c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000736	HepG2 cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011850	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-30c(miR-30c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000736	HepG2 cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011851	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-342(miR-342)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000805	HepG2 cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011852	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-342(miR-342)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000805	HepG2 cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011853	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-345(miR345)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000825	Liver cells	Downregulation	Virus	Protein	PreC	http://www.ncbi.nlm.nih.gov/gene/1403693	-	miRNA profiling, Solexa-sequencing, Target prediction, Analysis of expression-profile data, Consensus-scoring approach, RT-PCR.	21113793	We noted that miR196b and miR205 lack expression signatures in all of the nine liver samples, whereas miR-7, miR345, miR433, and miR511 had low expression counts in all the nine liver samples.The miRNAs miR-7, miR196b, miR433, and miR511 target the polymerase or S gene of HBV, miR205 targets the X gene, and miR345 targets the preC gene.
HVID00011854	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-433(miR433)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001723	Liver cells	Upregulation	Virus	Protein	HBVgp2(S)	http://www.ncbi.nlm.nih.gov/gene/944569	-	miRNA profiling, Solexa-sequencing, Target prediction, Analysis of expression-profile data, Consensus-scoring approach, RT-PCR.	21113793	The miRNAs miR-7, miR196b, miR433, and miR511 target the polymerase or S gene of HBV, miR205 targets the X gene, and miR345 targets the preC gene. Furthermore, the expression level of miR-7 and miR433 were rapidly upregulated in HBV-infected and severe chronic hepatitis-B liver tissues. .
HVID00011855	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-511(miR-511)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003127	Liver	Downregulation	Virus	Protein	HBVgp2(S)	http://www.ncbi.nlm.nih.gov/gene/944569	-	miRNA profiling, Solexa-sequencing, Target prediction, Analysis of expression-profile data, Consensus-scoring approach, RT-PCR.	21113793	We noted that miR196b and miR205 lack expression signatures in all of the nine liver samples, whereas miR-7, miR345, miR433, and miR511 had low expression counts in all the nine liver samples.The miRNAs miR-7, miR196b, miR433, and miR511 target the polymerase or S gene of HBV, miR205 targets the X gene, and miR345 targets the preC gene.
HVID00011856	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-7(miR-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000263	Liver cells	Upregulation	Virus	Protein	HBVgp2(S)	http://www.ncbi.nlm.nih.gov/gene/944569	-	miRNA profiling, Solexa-sequencing, Target prediction, Analysis of expression-profile data, Consensus-scoring approach, RT-PCR.	21113793	The miRNAs miR-7, miR196b, miR433, and miR511 target the polymerase or S gene of HBV, miR205 targets the X gene, and miR345 targets the preC gene. Furthermore, the expression level of miR-7 and miR433 were rapidly upregulated in HBV-infected and severe chronic hepatitis-B liver tissues. .
HVID00011857	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-98(miR-98)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000100	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011858	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-98(miR-98)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000100	HepG2 cells	Downregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011859	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-99b(miR-99b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000746	HepG2 cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	-	22425745	The mechanism by which HBV regulates cellular miRNAs is largely unknown. One possible way is through HBV x protein(HBx). HBx plays a key role in regulating HBV replication and hepatocarcinogenesis. It upregulates 7(miR-30c, -99b, -125a, -191, -193b, -199a, -342) and down-regulates 11(let-7a, let-7c, let-7d, let-7e, let-7f, let-7g, let-7i, miR-20a, -98, -106a, -196a) miRNAs in the HBx-transfected HepG2 cells in a microarray assay.
HVID00011860	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-99b(miR-99b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000746	HepG2 cells	Upregulation	Virus	Protein	HBVgp3(HBx)	http://www.ncbi.nlm.nih.gov/gene/944566	-	Reverse-transcription Taqman realtime-PCR, A microarray assay, 3'UTR-reporter assay.	20447714	Significantly differentially expressed miRNAs were identified as absolute mean fold change of greater than 1.5 andp-value of less than 0.01, and located in the two upper-lateral quadrants. Seven miRNAs (miR-30c, miR-193b, miR-342, miR-199a, miR-125a, miR-99b, and miR-191) were found to be significantly up-regulated while 11 miRNAs (miR-196a, miR-106a, miR-20a, and let-7 family of miRNAs) were found to be significantly down-regulated in HBx-expressing cells compared to the controlcells .
HVID00011861	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-let-7b(let-7b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000063	-	-	Virus	mRNA	HCVgp1(NS5B)	http://www.ncbi.nlm.nih.gov/gene/951475	Downregulation	Transient transfection and luciferase activity assay, Ribonucleoprotein immunoprecipitation (RIP) assay, Western-blot analysis, real-time quantitative RT-PCR.	24871972	In addition to miR-199*, let-7b was identified, which directly targets the NS5B coding region and 5'UTR sequences of the HCV genome, resulting in a decrease in HCV replicon replication, downregulation of HCV accumulation, and reduction of HCV infectivity.
HVID00011862	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-let-7b(let-7b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000063	ConI replicon cells and Huh7.5	-	Virus	Protein	HCVgp1(NS5B)	http://www.ncbi.nlm.nih.gov/gene/951475	Downregulation	Transient transfection and luciferase activity assay, Ribonucleoprotein immunoprecipitation (RIP) assay, Western-blot analysis, real-time quantitative RT-PCR.	22391672	In addition to miR-199*, let-7b was identified, which directly targets the NS5B coding region and 5?GUTR sequences of the HCV genome, resulting in a decrease in HCV replicon replication, downregulation of HCV accumulation, and reduction of HCV infectivity.
HVID00011863	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-miR-199a(miR-199*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000232	-	-	Virus	mRNA	HCVgp1(NS5B)	http://www.ncbi.nlm.nih.gov/gene/951475	Downregulation	Transient transfection and luciferase activity assay, Ribonucleoprotein immunoprecipitation (RIP) assay, Western-blot analysis, real-time quantitative RT-PCR.	24871972	In addition to miR-199*, let-7b was identified, which directly targets the NS5B coding region and 5'UTR sequences of the HCV genome, resulting in a decrease in HCV replicon replication, downregulation of HCV accumulation, and reduction of HCV infectivity.
HVID00011864	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	-	-	Virus	mRNA	HCVgp1(NS5B)	http://www.ncbi.nlm.nih.gov/gene/951475	Downregulation	Transient transfection and luciferase activity assay, Ribonucleoprotein immunoprecipitation (RIP) assay, Western-blot analysis, real-time quantitative RT-PCR.	24871972	In the case of the target site in the NS5B coding region, miR-122 was reported to inhibit HCV replication through binding to this site in the replicon system, suggesting that this binding site probably functions as a repressor for HCV replication.
HVID00011865	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	9-13 replicon cells	-	Virus	Protein	NS3-5B	http://www.ncbi.nlm.nih.gov/gene/951475	Downregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	miR-122 antagomir can inhibit replication of HCV, abundance of HCV core RNA, and expression of HCV nonstructural proteins (NS3 in CNS3 cells and NS3-5B in 9-13 replicon cells), in a time- and dose- dependent manner. These findings are suggestive of miR-122 as a potential target for antiviral interventions in HCV patients.
HVID00011866	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	CNS3 cells	-	Virus	Protein	HCVgp1(NS3)	http://www.ncbi.nlm.nih.gov/gene/951475	Downregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	miR-122 antagomir can inhibit replication of HCV, abundance of HCV core RNA, and expression of HCV nonstructural proteins (NS3 in CNS3 cells and NS3-5B in 9-13 replicon cells), in a time- and dose- dependent manner. These findings are suggestive of miR-122 as a potential target for antiviral interventions in HCV patients.
HVID00011867	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-122(miR-122)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000442	Huh7.5.1 cells	Downregulation	Virus	Protein	HCVgp1	http://www.ncbi.nlm.nih.gov/gene/951475	-	real-time PCR(RT-PCR).	23537271	The miR-122 levels in Huh7.5.1 cells infected with HCV for different days or different HCV abundance weremeasured by real-time PCR. Significant decrease of miR-122 expression was found at late stage of infection and inthe high-abundance group. Huh7.5.1 cells transfected with plasmid pEGFP-core or pEGFP were used to detect theeffects of HCV core protein on miR-122 expression, the results showed that core protein could down-regulate themiR-122 expression level in a time- and dose- dependent manner, and reduced the susceptibility of Huh7.5.1 cell toHCV.
HVID00011868	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-196	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000238	Huh7.5.1 cells	-	Virus	Protein	Con1	http://www.ncbi.nlm.nih.gov/gene/951475	Downregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	miR-196 has been found to inhibit HCV expression and repress HCV-induced oxidative damage. Transfection with miR-196 mimics significantly reduces HCV replicationTwo 6-nt sites within the HCV Con1 genome have been predicted to be complementary to a miR-196 region, implying that miR-196 inhibits HCV expression by directly targeting its Con1 genome. .
HVID00011869	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-196(miR-196)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000238	HCV J6/JFH1 cell culture system	-	Virus	Protein	HCVgp1(NS3)	http://www.ncbi.nlm.nih.gov/gene/951475	Downregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	Similar downregulation of HCV NS3 protein expression by miR-196 has also been confirmed in an HCV J6/JFH1 cell culture system.Moreover, miR-196 is able to repress oxidative damage by targeting the transcription regulator protein Bach1.
HVID00011870	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-196a(miR-196)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000238	HCV J6/JFH1 cells	-	Virus	Protein	HCVgp1(NS3)	http://www.ncbi.nlm.nih.gov/gene/951475	Downregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	Moreover, miR-196 is able to repress oxidative damage by targeting the transcription regulator protein Bach2 miR-196 has been found to inhibit HCV expression and repress HCV-induced oxidative damage. Transfection with miR-196 mimics significantly reduces HCV replication.Similar downregulation of HCV NS3 protein expression by miR-196 has also been confirmed in an HCV J6/JFH1 cell culture system.
HVID00011871	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-196a(miR-196)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000238	JFH1 region of the HCV genome	-	Virus	Protein	NS5A	http://www.ncbi.nlm.nih.gov/gene/951475	Downregulation	Western Blot Analysis, luciferase Reporter assay, Northern Blotting.	23108868	miR-196 has been found to inhibit HCV expression and repress HCV-induced oxidative damage. Transfection with miR-196 mimics significantly reduces HCV replication. Two 6-nt sites within the HCV Con1 genome have been predicted to be complementary to a miR-196 region, implying that miR-196 inhibits HCV expression by directly targeting its Con1 genome. Additionally, miR-196 has been demonstrated to block HCV replication through its action on NS5A gene in the JFH1 region of the HCV genome .
HVID00011872	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-196a(miR-196)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000238	-	Upregulation	Virus	mRNA	NS5A	http://www.ncbi.nlm.nih.gov/gene/951475	Downregulation	Transient transfection and luciferase activity assay, Ribonucleoprotein immunoprecipitation (RIP) assay, Western-blot analysis, real-time quantitative RT-PCR.	24871972	Two other microRNAs, miR-448 and miR-196, directly target the core and NS5A coding region of the HCV genome, respectively. Overexpression of these two miRNAs substantially reduces HCV replication.
HVID00011873	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-196b(miR-196)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001150	-	Upregulation	Virus	mRNA	NS5A	http://www.ncbi.nlm.nih.gov/gene/951475	Downregulation	Transient transfection and luciferase activity assay, Ribonucleoprotein immunoprecipitation (RIP) assay, Western-blot analysis, real-time quantitative RT-PCR.	24871972	Two other microRNAs, miR-448 and miR-196, directly target the core and NS5A coding region of the HCV genome, respectively. Overexpression of these two miRNAs substantially reduces HCV replication.
HVID00011874	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-199b(miR-199*)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000282	-	-	Virus	mRNA	HCVgp1(NS5B)	http://www.ncbi.nlm.nih.gov/gene/951475	Downregulation	Transient transfection and luciferase activity assay, Ribonucleoprotein immunoprecipitation (RIP) assay, Western-blot analysis, real-time quantitative RT-PCR.	24871972	In addition to miR-199*, let-7b was identified, which directly targets the NS5B coding region and 5'UTR sequences of the HCV genome, resulting in a decrease in HCV replicon replication, downregulation of HCV accumulation, and reduction of HCV infectivity.
HVID00011875	Human T-cell leukemia virus 1(HTLV-1)	Homo sapiens	Host	miRNA	hsa-mir-146a(miR-146a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000477	Peripheral blood mononuclear cells	Upregulation	Virus	Protein	Tax	http://www.ncbi.nlm.nih.gov/gene/1491938	-	Determination of provirus copy numbers, Analysis of effects of HTLV-1 proteins on endogenous microRNAs, Isolation of PBMC and lymphocyte populations, Quantification of mature microRNAs, Promoter analysis, Statistical analysis, MicroRNA primary transcript and mRNA detection.	19014482	miR-146a expression was found to be directly stimulated by Tax via NF-KB-mediated transactivation of its promoter; a single NF-KB site proximal to the transcription start point was necessary and sufficient for this to happen. An in silico analysis of potential target genes revealed candidates that might be coregulated by two or more of the aforementioned overexpressed microRNAs.
HVID00011876	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	LncRNA	NEAT1	http://lncrnadb.com/Detail.aspx?TKeyID=105	Jurkat cells	Upregulation	Virus	Protein	Rev	http://www.ncbi.nlm.nih.gov/gene/155908	-	LncRNA profiling, Western blotting, qRT-PCR, Immunofluorescence and confocal microscopy.	23362321	Here, we report the first evidence of NEAT1 as an LncRNA involved in HIV-1 replication. We show that HIV-1 infection increases NEAT1 RNA expression by 5- to 10-fold over that for uninfected cells . Using two different approaches, siRNA and antisense DNA, we demonstrated that the knockdown of NEAT1 enhanced virus production by increasing nucleus-tocytoplasm export of Rev-dependent INS-containing HIV-1 transcripts. .
HVID00011877	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	LncRNA	NEAT1	http://lncrnadb.com/Detail.aspx?TKeyID=105	T cells	Upregulation	Virus	Protein	INS	http://www.ncbi.nlm.nih.gov/gene/155908	Downregulation	LncRNA profiling, Western blotting, qRT-PCR, Immunofluorescence and confocal microscopy.	23362321	Here, we report the first evidence of NEAT1 as an LncRNA involved in HIV-1 replication. We show that HIV-1 infection increases NEAT1 RNA expression by 5- to 10-fold over that for uninfected cells . Using two different approaches, siRNA and antisense DNA, we demonstrated that the knockdown of NEAT1 enhanced virus production by increasing nucleus-tocytoplasm export of Rev-dependent INS-containing HIV-1 transcripts. .
HVID00011878	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	has-miR-20a(has-miR-20a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000076	-	-	Virus	mRNA	PCAF	http://www.ncbi.nlm.nih.gov/gene/155871	Upregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HVID00011879	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-125a-3p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004602	CD4+ T cells	-	Virus	mRNA	nef(Nef)	http://www.ncbi.nlm.nih.gov/gene/156110	Downregulation	Real-time reverse transcription PCR(RT-PCR).	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-2 and cellular gene products.Transcriptional control is vital to the HIV- 1 proliferation, thus determining microRNA interactions among host transcription factors and regulators is a necessity.
HVID00011880	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-125a-5p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000443	CD4+ T cells	-	Virus	mRNA	nef(Nef)	http://www.ncbi.nlm.nih.gov/gene/156110	Downregulation	Real-time reverse transcription PCR(RT-PCR).	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-2 and cellular gene products.Transcriptional control is vital to the HIV- 1 proliferation, thus determining microRNA interactions among host transcription factors and regulators is a necessity.
HVID00011881	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-125b-3p(hsa-miR-125b-1*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004592	CD4+ T cells	-	Virus	mRNA	nef(Nef)	http://www.ncbi.nlm.nih.gov/gene/156110	Downregulation	Real-time reverse transcription PCR(RT-PCR).	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-2 and cellular gene products.Transcriptional control is vital to the HIV- 1 proliferation, thus determining microRNA interactions among host transcription factors and regulators is a necessity.
HVID00011882	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-125b-5p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000423	CD4+ T cells	-	Virus	mRNA	nef(Nef)	http://www.ncbi.nlm.nih.gov/gene/156110	Downregulation	Real-time reverse transcription PCR(RT-PCR).	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-2 and cellular gene products.Transcriptional control is vital to the HIV- 1 proliferation, thus determining microRNA interactions among host transcription factors and regulators is a necessity.
HVID00011883	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-125b-5p(hsa-miR-125b-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000423	-	-	Virus	mRNA	Nef	http://www.ncbi.nlm.nih.gov/gene/156110	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HVID00011884	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-149(hsa-miR-149)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000478	-	-	Virus	mRNA	Vpr	http://www.ncbi.nlm.nih.gov/gene/155807	Downregulation	-	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-1 and cellular gene products.
HVID00011885	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-149-5p(hsa-mir-149)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000450	-	-	Virus	Protein	vpr	http://www.ncbi.nlm.nih.gov/gene/155807	-	MicroRNA microarray, consensus scoring approach.	16236258	Targets for human encoded microRNAs in HIV genes. While hsa-mir-29a and 29b target the nef gene, hsa-mir-149 targets the vpr gene, hsa-mir-378 targets env, and hsa-mir-324-5p targets the vif gene.
HVID00011886	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-150(miR-150)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000479	CD4+ T lymphocytes	Upregulation	Virus	Protein	Nef	http://www.ncbi.nlm.nih.gov/gene/156110	-	Synthesis of short interfering RNAs and microRNA inhibitors, Plasmid construction, Alu-PCR, Real-time reverse transcription PCR detection, Flow cytometric analysis, Prediction of microRNA-binding sites, MicroRNA array analysis, Transfection, Isolation and culture of primary CD4+ T cells.	21862142	They concluded that several host miRNAs (miR-125b, miR-150, miR-28, miR-223, and miR-382), which are highly expressed in resting CD4+ T lymphocytes, may target the Nef/3'LTR region and contribute to HIV-1 latency. Specific antagomirs (anti-micro RNA antisense) against these miRNAs substantially increased HIV-1 protein translation in resting CD4 cells.
HVID00011887	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-17-5p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000070	-	Downregulation	Virus	Protein	KAT2B(PCAF)	http://www.ncbi.nlm.nih.gov/gene/8850	Upregulation	Hybridization and analysis, Reverse transcription and real-time PCR, Microarray probes, infection and flow cytometry, Transfection.	21569500	Two members of the hsa-miR-17/92 cluster, hsa-miR-17-5p and hsa-miR-20a, target the mRNA of the PCAF cofactor of Tat trans-activation. Our results and published microarrays agree in downregulation of these miRNA by HIV-1 . Their perturbation in HIV-1 infection is near the 2-fold cutoff and sensitive, and specific measurement of the expression changes by RT-qPCR is warranted.
HVID00011888	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-28(miR-28)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000086	CD4+ T lymphocytes	Upregulation	Virus	Protein	Nef	http://www.ncbi.nlm.nih.gov/gene/156110	-	Synthesis of short interfering RNAs and microRNA inhibitors, Plasmid construction, Alu-PCR, Real-time reverse transcription PCR detection, Flow cytometric analysis, Prediction of microRNA-binding sites, MicroRNA array analysis, Transfection, Isolation and culture of primary CD4+ T cells.	21862142	They concluded that several host miRNAs (miR-125b, miR-150, miR-28, miR-223, and miR-382), which are highly expressed in resting CD4+ T lymphocytes, may target the Nef/3'LTR region and contribute to HIV-1 latency. Specific antagomirs (anti-micro RNA antisense) against these miRNAs substantially increased HIV-1 protein translation in resting CD4 cells.
HVID00011889	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29a-3p(hsa-mir-29a)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000086	-	-	Virus	Protein	nef	http://www.ncbi.nlm.nih.gov/gene/156110	-	MicroRNA microarray, consensus scoring approach.	16236258	Targets for human encoded microRNAs in HIV genes. While hsa-mir-29a and 29b target the nef gene, hsa-mir-149 targets the vpr gene, hsa-mir-378 targets env, and hsa-mir-324-5p targets the vif gene.
HVID00011890	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29a-5p(hsa-miR-29a*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004503	CD4+ T cells	-	Virus	mRNA	nef(Nef)	http://www.ncbi.nlm.nih.gov/gene/156110	Downregulation	Real-time reverse transcription PCR(RT-PCR), Reporter assay.	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-2 and cellular gene products.Transcriptional control is vital to the HIV- 1 proliferation, thus determining microRNA interactions among host transcription factors and regulators is a necessity.
HVID00011891	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29b(microRNA-29b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000105	CD4(+)CD8(-) PBMCs	Downregulation	Virus	Protein	Nef	http://www.ncbi.nlm.nih.gov/gene/156110	-	Dual Luciferase reporter assays, Immunobloting, HIV sequence search and alignment,  Cell cycle analysis, northern blot.	22080513	we find that several host microRNAs are significantly up- or downregulated around the time HIV-1 infection peaks in vitro.While microRNA-223 levels were significantly enriched in HIV-1-infected CD4+CD8PBMCs,microRNA-29a/b, microRNA-155 and microRNA-21 levels were significantly reduced.Based on the potential for microRNA binding sites in a conserved sequence of the Nef-3'-LTR, several host microRNAs potentially could affect HIV-1 gene expression.Among those microRNAs, the microRNA-29 family has seed complementarity in the HIV-1 3'-UTR, but the potential suppressive effect of microRNA-29 on HIV-1 is severely blocked by the secondary structure of the target region.
HVID00011892	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-29b-3p(hsa-mir-29b)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000100	-	-	Virus	Protein	nef	http://www.ncbi.nlm.nih.gov/gene/156110	-	MicroRNA microarray, consensus scoring approach.	16236258	Targets for human encoded microRNAs in HIV genes. While hsa-mir-29a and 29b target the nef gene, hsa-mir-149 targets the vpr gene, hsa-mir-378 targets env, and hsa-mir-324-5p targets the vif gene.
HVID00011893	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-324-5p(hsa-mir-324-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000761	-	-	Virus	Protein	vif	http://www.ncbi.nlm.nih.gov/gene/155459	-	MicroRNA microarray, consensus scoring approach.	16236258	Targets for human encoded microRNAs in HIV genes. While hsa-mir-29a and 29b target the nef gene, hsa-mir-149 targets the vpr gene, hsa-mir-378 targets env, and hsa-mir-324-5p targets the vif gene.
HVID00011894	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-miR-378(miR-378)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000786	-	-	Virus	Protein	Vpu	http://www.ncbi.nlm.nih.gov/gene/155945	-	-	21786074	Targets vpu.Table 1 Functions of cellular miRNAs identified in HIV.Table 1 summarizes the list of cellular miRNAs identified in relation to HIV/AIDS, the functions of which are discussed in this review.
HVID00011895	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-125b(miR-125b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000446	CD4+ T cells	-	Virus	Protein	rev(Rev)	http://www.ncbi.nlm.nih.gov/gene/155908	Downregulation	Synthesis of short interfering RNAs and microRNA inhibitors, Plasmid construction, Alu-PCR, Real-time reverse transcription PCR detection, Flow cytometric analysis, Prediction of microRNA-binding sites, MicroRNA array analysis, Transfection, Isolation and culture of primary CD4+ T cells.	17906637	We have found that the 3'ends of HIV-1 messenger RNAs are targeted by a cluster of cellular miRNAs including miR-28, miR-125b, miR-150, miR-223 and miR-382, which are enriched in resting CD4+ T cells as compared to activated CD4+ T cells.It is known that every spliced or unspliced HIV-1 mRNA, with the exception of Nef-encoding mRNA, contains the 1.2-kb fragment we used (or a portion of it) in its 3'UTR25 . Thus, these cellular miRNAs, which bind the 1.2-kb fragment of the HIV-1 RNA 3'end, can inhibit the translation of almost all HIV-1-encoded proteins-including Tat and Rev, which are key in the transcription and translocation of viral RNA.
HVID00011896	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-125b(miR-125b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000446	CD4+ T cells	-	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	Downregulation	Synthesis of short interfering RNAs and microRNA inhibitors, Plasmid construction, Alu-PCR, Real-time reverse transcription PCR detection, Flow cytometric analysis, Prediction of microRNA-binding sites, MicroRNA array analysis, Transfection, Isolation and culture of primary CD4+ T cells.	17906637	We have found that the 3'ends of HIV-1 messenger RNAs are targeted by a cluster of cellular miRNAs including miR-28, miR-125b, miR-150, miR-223 and miR-382, which are enriched in resting CD4+ T cells as compared to activated CD4+ T cells.It is known that every spliced or unspliced HIV-1 mRNA, with the exception of Nef-encoding mRNA, contains the 1.2-kb fragment we used (or a portion of it) in its 3'UTR25 . Thus, these cellular miRNAs, which bind the 1.2-kb fragment of the HIV-1 RNA 3'end, can inhibit the translation of almost all HIV-1-encoded proteins-including Tat and Rev, which are key in the transcription and translocation of viral RNA.
HVID00011897	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-125b(miR-125b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000446	CD4+ T lymphocytes	Upregulation	Virus	Protein	Nef	http://www.ncbi.nlm.nih.gov/gene/156110	-	Synthesis of short interfering RNAs and microRNA inhibitors, Plasmid construction, Alu-PCR, Real-time reverse transcription PCR detection, Flow cytometric analysis, Prediction of microRNA-binding sites, MicroRNA array analysis, Transfection, Isolation and culture of primary CD4+ T cells.	21862142	They concluded that several host miRNAs (miR-125b, miR-150, miR-28, miR-223, and miR-382), which are highly expressed in resting CD4+ T lymphocytes, may target the Nef/3'LTR region and contribute to HIV-1 latency. Specific antagomirs (anti-micro RNA antisense) against these miRNAs substantially increased HIV-1 protein translation in resting CD4 cells.
HVID00011898	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-149(hsa-miR-149)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000478	CD4+ T cells	-	Virus	mRNA	vpr(Vpr)	http://www.ncbi.nlm.nih.gov/gene/155807	Downregulation	Microarray analysis.	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-2 and cellular gene products.Transcriptional control is vital to the HIV- 1 proliferation, thus determining microRNA interactions among host transcription factors and regulators is a necessity.
HVID00011899	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-149(miR-149)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000478	-	-	Virus	Protein	Vpr	http://www.ncbi.nlm.nih.gov/gene/155807	-	-	21786074	Target prediction analysis by Nathans et al. suggested that the HIV-1 3'-UTR can be targeted by 11 miRNAs(miR-29a, 29b, 29c, 149, 147, 138, 513, 516-5p, 581, 644, and 647.
HVID00011900	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-149(miR149)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000478	-	-	Virus	Protein	Vpr	http://www.ncbi.nlm.nih.gov/gene/155807	Downregulation	Luciferase reporter, immunofluorescence, RT-PCR.	21133815	It was also noted further that HIV miR-H1 downregulated expression of the cellular miRNA miR149, which is considered to target the Vpr gene encoded by HIV-1.
HVID00011901	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-150(miR-150)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000479	CD4+ T cells	-	Virus	Protein	rev(Rev)	http://www.ncbi.nlm.nih.gov/gene/155908	Downregulation	Synthesis of short interfering RNAs and microRNA inhibitors, Plasmid construction, Alu-PCR, Real-time reverse transcription PCR detection, Flow cytometric analysis, Prediction of microRNA-binding sites, MicroRNA array analysis, Transfection, Isolation and culture of primary CD4+ T cells.	17906637	We have found that the 3'ends of HIV-1 messenger RNAs are targeted by a cluster of cellular miRNAs including miR-28, miR-125b, miR-150, miR-223 and miR-382, which are enriched in resting CD4+ T cells as compared to activated CD4+ T cells.It is known that every spliced or unspliced HIV-1 mRNA, with the exception of Nef-encoding mRNA, contains the 1.2-kb fragment we used (or a portion of it) in its 3'UTR25 . Thus, these cellular miRNAs, which bind the 1.2-kb fragment of the HIV-1 RNA 3'end, can inhibit the translation of almost all HIV-1-encoded proteins-including Tat and Rev, which are key in the transcription and translocation of viral RNA.
HVID00011902	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-150(miR-150)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000479	CD4+ T cells	-	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	Downregulation	Synthesis of short interfering RNAs and microRNA inhibitors, Plasmid construction, Alu-PCR, Real-time reverse transcription PCR detection, Flow cytometric analysis, Prediction of microRNA-binding sites, MicroRNA array analysis, Transfection, Isolation and culture of primary CD4+ T cells.	17906637	We have found that the 3'ends of HIV-1 messenger RNAs are targeted by a cluster of cellular miRNAs including miR-28, miR-125b, miR-150, miR-223 and miR-382, which are enriched in resting CD4+ T cells as compared to activated CD4+ T cells.It is known that every spliced or unspliced HIV-1 mRNA, with the exception of Nef-encoding mRNA, contains the 1.2-kb fragment we used (or a portion of it) in its 3'UTR25 . Thus, these cellular miRNAs, which bind the 1.2-kb fragment of the HIV-1 RNA 3'end, can inhibit the translation of almost all HIV-1-encoded proteins-including Tat and Rev, which are key in the transcription and translocation of viral RNA.
HVID00011903	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-155(microRNA-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000681	CD4(+)CD8(-) PBMCs	Downregulation	Virus	Protein	Nef	http://www.ncbi.nlm.nih.gov/gene/156110	-	Dual Luciferase reporter assays, Immunobloting, HIV sequence search and alignment,  Cell cycle analysis, northern blot.	22080513	we find that several host microRNAs are significantly up- or downregulated around the time HIV-1 infection peaks in vitro.While microRNA-223 levels were significantly enriched in HIV-1-infected CD4+CD8PBMCs,microRNA-29a/b, microRNA-155 and microRNA-21 levels were significantly reduced.Based on the potential for microRNA binding sites in a conserved sequence of the Nef-3'-LTR, several host microRNAs potentially could affect HIV-1 gene expression.Among those microRNAs, the microRNA-29 family has seed complementarity in the HIV-1 3'-UTR, but the potential suppressive effect of microRNA-29 on HIV-1 is severely blocked by the secondary structure of the target region.
HVID00011904	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-17(hsa-miR-17)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000071	-	Downregulation	Virus	Protein	KAT4B(PCAF)	http://www.ncbi.nlm.nih.gov/gene/8850	Upregulation	Hybridization and analysis, Reverse transcription and real-time PCR, Microarray probes, infection and flow cytometry, Transfection.	21569500	Two members of the hsa-miR-17/92 cluster, hsa-miR-17-5p and hsa-miR-20a, target the mRNA of the PCAF cofactor of Tat trans-activation. Our results and published microarrays agree in downregulation of these miRNA by HIV-1 . Their perturbation in HIV-1 infection is near the 2-fold cutoff and sensitive, and specific measurement of the expression changes by RT-qPCR is warranted.
HVID00011905	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-20a(hsa-miR-20a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000076	-	Downregulation	Virus	Protein	KAT5B(PCAF)	http://www.ncbi.nlm.nih.gov/gene/8850	Upregulation	Infection and flow cytometry, TransfectionMicroarray probes, hybridization and analysis, Reverse transcription and real-time PCR.	21569500	Two members of the hsa-miR-17/92 cluster, hsa-miR-17-5p and hsa-miR-20a, target the mRNA of the PCAF cofactor of Tat trans-activation. Our results and published microarrays agree in downregulation of these miRNA by HIV-1 . Their perturbation in HIV-1 infection is near the 2-fold cutoff and sensitive, and specific measurement of the expression changes by RT-qPCR is warranted.
HVID00011906	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-21(microRNA-21)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000077	CD4(+)CD8(-) PBMCs	Downregulation	Virus	Protein	Nef	http://www.ncbi.nlm.nih.gov/gene/156110	-	Dual Luciferase reporter assays, Immunobloting, HIV sequence search and alignment,  Cell cycle analysis, northern blot.	22080513	we find that several host microRNAs are significantly up- or downregulated around the time HIV-1 infection peaks in vitro.While microRNA-223 levels were significantly enriched in HIV-1-infected CD4+CD8PBMCs,microRNA-29a/b, microRNA-155 and microRNA-21 levels were significantly reduced.Based on the potential for microRNA binding sites in a conserved sequence of the Nef-3'-LTR, several host microRNAs potentially could affect HIV-1 gene expression.Among those microRNAs, the microRNA-29 family has seed complementarity in the HIV-1 3'-UTR, but the potential suppressive effect of microRNA-29 on HIV-1 is severely blocked by the secondary structure of the target region.
HVID00011907	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-223(miR-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000300	CD4+ T cells	-	Virus	Protein	rev(Rev)	http://www.ncbi.nlm.nih.gov/gene/155908	Downregulation	Synthesis of short interfering RNAs and microRNA inhibitors, Plasmid construction, Alu-PCR, Real-time reverse transcription PCR detection, Flow cytometric analysis, Prediction of microRNA-binding sites, MicroRNA array analysis, Transfection, Isolation and culture of primary CD4+ T cells.	17906637	We have found that the 3'ends of HIV-1 messenger RNAs are targeted by a cluster of cellular miRNAs including miR-28, miR-125b, miR-150, miR-223 and miR-382, which are enriched in resting CD4+ T cells as compared to activated CD4+ T cells.It is known that every spliced or unspliced HIV-1 mRNA, with the exception of Nef-encoding mRNA, contains the 1.2-kb fragment we used (or a portion of it) in its 3'UTR25 . Thus, these cellular miRNAs, which bind the 1.2-kb fragment of the HIV-1 RNA 3'end, can inhibit the translation of almost all HIV-1-encoded proteins-including Tat and Rev, which are key in the transcription and translocation of viral RNA.
HVID00011908	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-223(miR-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000300	CD4+ T cells	-	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	Downregulation	Synthesis of short interfering RNAs and microRNA inhibitors, Plasmid construction, Alu-PCR, Real-time reverse transcription PCR detection, Flow cytometric analysis, Prediction of microRNA-binding sites, MicroRNA array analysis, Transfection, Isolation and culture of primary CD4+ T cells.	17906637	We have found that the 3'ends of HIV-1 messenger RNAs are targeted by a cluster of cellular miRNAs including miR-28, miR-125b, miR-150, miR-223 and miR-382, which are enriched in resting CD4+ T cells as compared to activated CD4+ T cells.It is known that every spliced or unspliced HIV-1 mRNA, with the exception of Nef-encoding mRNA, contains the 1.2-kb fragment we used (or a portion of it) in its 3'UTR25 . Thus, these cellular miRNAs, which bind the 1.2-kb fragment of the HIV-1 RNA 3'end, can inhibit the translation of almost all HIV-1-encoded proteins-including Tat and Rev, which are key in the transcription and translocation of viral RNA.
HVID00011909	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-223(miR-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000300	CD4+ T lymphocytes	Upregulation	Virus	Protein	Nef	http://www.ncbi.nlm.nih.gov/gene/156110	-	Synthesis of short interfering RNAs and microRNA inhibitors, Plasmid construction, Alu-PCR, Real-time reverse transcription PCR detection, Flow cytometric analysis, Prediction of microRNA-binding sites, MicroRNA array analysis, Transfection, Isolation and culture of primary CD4+ T cells.	21862142	They concluded that several host miRNAs (miR-125b, miR-150, miR-28, miR-223, and miR-382), which are highly expressed in resting CD4+ T lymphocytes, may target the Nef/3'LTR region and contribute to HIV-1 latency. Specific antagomirs (anti-micro RNA antisense) against these miRNAs substantially increased HIV-1 protein translation in resting CD4 cells.
HVID00011910	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-223(microRNA-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000300	CD4(+)CD8(-) PBMCs	Upregulation	Virus	Protein	Nef	http://www.ncbi.nlm.nih.gov/gene/156110	-	Dual Luciferase reporter assays, Immunobloting, HIV sequence search and alignment,  Cell cycle analysis, northern blot.	22080513	we find that several host microRNAs are significantly up- or downregulated around the time HIV-1 infection peaks in vitro.While microRNA-223 levels were significantly enriched in HIV-1-infected CD4+CD8PBMCs,microRNA-29a/b, microRNA-155 and microRNA-21 levels were significantly reduced.Based on the potential for microRNA binding sites in a conserved sequence of the Nef-3'-LTR, several host microRNAs potentially could affect HIV-1 gene expression.Among those microRNAs, the microRNA-29 family has seed complementarity in the HIV-1 3'-UTR, but the potential suppressive effect of microRNA-29 on HIV-1 is severely blocked by the secondary structure of the target region.
HVID00011911	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-28(miR-28)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000086	CD4+ T cells	-	Virus	Protein	rev(Rev)	http://www.ncbi.nlm.nih.gov/gene/155908	Downregulation	Alu-PCR, Real-time reverse transcription PCR detection, Flow cytometric analysis, MicroRNA array analysis, Transfection.	17906637	We have found that the 3'ends of HIV-1 messenger RNAs are targeted by a cluster of cellular miRNAs including miR-28, miR-125b, miR-150, miR-223 and miR-382, which are enriched in resting CD4+ T cells as compared to activated CD4+ T cells.It is known that every spliced or unspliced HIV-1 mRNA, with the exception of Nef-encoding mRNA, contains the 1.2-kb fragment we used (or a portion of it) in its 3'UTR25 . Thus, these cellular miRNAs, which bind the 1.2-kb fragment of the HIV-1 RNA 3'end, can inhibit the translation of almost all HIV-1-encoded proteins-including Tat and Rev, which are key in the transcription and translocation of viral RNA.
HVID00011912	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-28(miR-28)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000086	CD4+ T cells	-	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	Downregulation	Alu-PCR, Real-time reverse transcription PCR detection, Flow cytometric analysis, MicroRNA array analysis, Transfection.	17906637	We have found that the 3'ends of HIV-1 messenger RNAs are targeted by a cluster of cellular miRNAs including miR-28, miR-125b, miR-150, miR-223 and miR-382, which are enriched in resting CD4+ T cells as compared to activated CD4+ T cells. It is known that every spliced or unspliced HIV-1 mRNA, with the exception of Nef-encoding mRNA, contains the 1.2-kb fragment we used (or a portion of it) in its 3'UTR25 . Thus, these cellular miRNAs, which bind the 1.2-kb fragment of the HIV-1 RNA 3'end, can inhibit the translation of almost all HIV-1-encoded proteins-including Tat and Rev, which are key in the transcription and translocation of viral RNA.
HVID00011913	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29a(hsa-miR-29a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	CD4+ T cells	-	Virus	mRNA	nef(Nef)	http://www.ncbi.nlm.nih.gov/gene/156110	Downregulation	Real-time reverse transcription PCR(RT-PCR), Reporter assay.	22936931	Table2 summarizes the list of cellular microRNAs with their validated host cellular protein targets and their corresponding cellular functions. Table 2 List of published cellular microRNAs and their target HIV-2 and cellular gene products.Transcriptional control is vital to the HIV- 1 proliferation, thus determining microRNA interactions among host transcription factors and regulators is a necessity.
HVID00011914	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29a(hsa-miR29a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	HeLa cell line	Downregulation	Virus	Protein	nef(Nef)	http://www.ncbi.nlm.nih.gov/gene/156110	Downregulation	Trizol method, PCR amplification, Northern blotting, Single cycle replication studies, Transfection and Reporter assay, Primer extension.	19102781	Here we report the functionality of predicted miR-29a target site in the HIV-1 nef gene.Our results show that the cellular miRNA hsa-miR29a downregulates the expression of Nef protein and interferes with HIV-1 replication.
HVID00011915	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	Jurkat cells	-	Virus	Protein	Nef	http://www.ncbi.nlm.nih.gov/gene/156110	Downregulation	Transfection and Reporter assay.	23043098	miRNAs can modulate HIV replication in two ways: directly targeting HIV RNA or targeting the mRNAs that encode host cell factors relevant to HIV replication.These investigators confirmed later that one of the five identified miRNAs (miR-29a) inhibited nef expression, leading to repressed HIV replication in Jurkat cells.
HVID00011916	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29a(microRNA-29a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	CD4(+)CD8(-) PBMCs	Downregulation	Virus	Protein	Nef	http://www.ncbi.nlm.nih.gov/gene/156110	-	Dual Luciferase reporter assays, Immunobloting, HIV sequence search and alignment,  Cell cycle analysis, northern blot.	22080513	we find that several host microRNAs are significantly up- or downregulated around the time HIV-1 infection peaks in vitro.While microRNA-223 levels were significantly enriched in HIV-1-infected CD4+CD8PBMCs,microRNA-29a/b, microRNA-155 and microRNA-21 levels were significantly reduced.Based on the potential for microRNA binding sites in a conserved sequence of the Nef-3'-LTR, several host microRNAs potentially could affect HIV-1 gene expression.Among those microRNAs, the microRNA-29 family has seed complementarity in the HIV-1 3'-UTR, but the potential suppressive effect of microRNA-29 on HIV-1 is severely blocked by the secondary structure of the target region.
HVID00011917	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-29b(hsa-miR29b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000105	HEK293T cells	Downregulation	Virus	Protein	nef(Nef)	http://www.ncbi.nlm.nih.gov/gene/156110	Downregulation	Trizol method, PCR amplification, Northern blotting, Single cycle replication studies, Transfection and Reporter assay, Primer extension.	19102781	Our results show that the cellular miRNA hsa-miR29a downregulates the expression of Nef protein and interferes with HIV-1 replication.
HVID00011918	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-324-5p(miR-324-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000761	-	-	Virus	Protein	Vif	http://www.ncbi.nlm.nih.gov/gene/155459	-	-	21786074	Targets vif.Table 1 Functions of cellular miRNAs identified in HIV.Table 1 summarizes the list of cellular miRNAs identified in relation to HIV/AIDS, the functions of which are discussed in this review.
HVID00011919	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-378	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000731	-	-	Virus	Protein	env	http://www.ncbi.nlm.nih.gov/gene/155971	-	MicroRNA microarray, consensus scoring approach.	16236258	Targets for human encoded microRNAs in HIV genes. While hsa-mir-29a and 29b target the nef gene, hsa-mir-149 targets the vpr gene, hsa-mir-378 targets env, and hsa-mir-324-5p targets the vif gene.
HVID00011920	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-382(miR-382)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000790	CD4+ T lymphocytes	Upregulation	Virus	Protein	Nef	http://www.ncbi.nlm.nih.gov/gene/156110	-	Synthesis of short interfering RNAs and microRNA inhibitors, Plasmid construction, Alu-PCR, Real-time reverse transcription PCR detection, Flow cytometric analysis, Prediction of microRNA-binding sites, MicroRNA array analysis, Transfection, Isolation and culture of primary CD4+ T cells.	21862142	They concluded that several host miRNAs (miR-125b, miR-150, miR-28, miR-223, and miR-382), which are highly expressed in resting CD4+ T lymphocytes, may target the Nef/3'LTR region and contribute to HIV-1 latency. Specific antagomirs (anti-micro RNA antisense) against these miRNAs substantially increased HIV-1 protein translation in resting CD4 cells.
HVID00011921	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-382(miR-382)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000790	CD4+ T lymphocytes	Upregulation	Virus	Protein	rev(Rev)	http://www.ncbi.nlm.nih.gov/gene/155908	-	Synthesis of short interfering RNAs and microRNA inhibitors, Plasmid construction, Alu-PCR, Real-time reverse transcription PCR detection, Flow cytometric analysis, Prediction of microRNA-binding sites, MicroRNA array analysis, Transfection, Isolation and culture of primary CD4+ T cells.	17906637	We have found that the 3'ends of HIV-1 messenger RNAs are targeted by a cluster of cellular miRNAs including miR-28, miR-125b, miR-150, miR-223 and miR-382, which are enriched in resting CD4+ T cells as compared to activated CD4+ T cells.It is known that every spliced or unspliced HIV-1 mRNA, with the exception of Nef-encoding mRNA, contains the 1.2-kb fragment we used (or a portion of it) in its 3'UTR25 . Thus, these cellular miRNAs, which bind the 1.2-kb fragment of the HIV-1 RNA 3'end, can inhibit the translation of almost all HIV-1-encoded proteins-including Tat and Rev, which are key in the transcription and translocation of viral RNA.
HVID00011922	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-382(miR-382)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000790	CD4+ T lymphocytes	Upregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Synthesis of short interfering RNAs and microRNA inhibitors, Plasmid construction, Alu-PCR, Real-time reverse transcription PCR detection, Flow cytometric analysis, Prediction of microRNA-binding sites, MicroRNA array analysis, Transfection, Isolation and culture of primary CD4+ T cells.	17906637	We have found that the 3'ends of HIV-1 messenger RNAs are targeted by a cluster of cellular miRNAs including miR-28, miR-125b, miR-150, miR-223 and miR-382, which are enriched in resting CD4+ T cells as compared to activated CD4+ T cells.It is known that every spliced or unspliced HIV-1 mRNA, with the exception of Nef-encoding mRNA, contains the 1.2-kb fragment we used (or a portion of it) in its 3'UTR25 . Thus, these cellular miRNAs, which bind the 1.2-kb fragment of the HIV-1 RNA 3'end, can inhibit the translation of almost all HIV-1-encoded proteins-including Tat and Rev, which are key in the transcription and translocation of viral RNA.
HVID00011923	Human immunodeficiency virus 1(HIV-1)	Homo sapiens	Host	miRNA	hsa-mir-92a(hsa-miR-92)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000093	-	Downregulation	Virus	Protein	KAT3B(PCAF)	http://www.ncbi.nlm.nih.gov/gene/8850	Upregulation	Hybridization and analysis, Reverse transcription and real-time PCR, Microarray probes, infection and flow cytometry, Transfection.	21569500	Two members of the hsa-miR-17/92 cluster, hsa-miR-17-5p and hsa-miR-20a, target the mRNA of the PCAF cofactor of Tat trans-activation. Our results and published microarrays agree in downregulation of these miRNA by HIV-1 . Their perturbation in HIV-1 infection is near the 2-fold cutoff and sensitive, and specific measurement of the expression changes by RT-qPCR is warranted.
HVID00011924	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-let-7b	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000829	-	Downregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Quantitative RT-PCR, Immunohistochemistry, MicroRNA microarray, microRNA functional analysis, MicroRNA gene targets prediction, Western blots, Statistical analysis.	18381601	These are designated 128a, 128b, 100, 99a, 30b, 30c, let-7c, let-7f, let-7b, let-7e, 125a, 125b, 191, 181a, and 9. A group of six microRNAs (374, 128a, 128b, 100, 25, and 99a) was upregulated in Tat-treated samples (mean fold change from 4.4 to 1.5; P-value <0.01). The presence of Tat in neurons also determined a downregulation of seven microRNAs: let-7e, 298, let-7f, let-7c, let-7b, 320, and 214. The expression pattern of a third group of microRNAs (125a, 92, 30c, 99b, 125b, 181a, 191, and 9) was not changed by Tat-treatment.
HVID00011925	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-let-7b(let-7b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000829	rat primary cortical neurons	Downregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	-	21786074	Eletto and colleagues reported that a group of six miRNAs (374, 128a, 128b, 100, 25, and 99a) were upregulated and seven miRNAs (let-7e, 298, let-7f, let-7c, let-7b, 320, and 214) were downregulated by Tat in rat primary cortical neurons. Among these, miR-128a has been found to be enriched in the brain, preferentially in the mature neurons.
HVID00011926	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-let-7c-1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000830	-	Downregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Quantitative RT-PCR, Immunohistochemistry, MicroRNA microarray, microRNA functional analysis, MicroRNA gene targets prediction, Western blots, Statistical analysis.	18381601	These are designated 128a, 128b, 100, 99a, 30b, 30c, let-7c, let-7f, let-7b, let-7e, 125a, 125b, 191, 181a, and 9. A group of six microRNAs (374, 128a, 128b, 100, 25, and 99a) was upregulated in Tat-treated samples (mean fold change from 4.4 to 1.5; P-value <0.01). The presence of Tat in neurons also determined a downregulation of seven microRNAs: let-7e, 298, let-7f, let-7c, let-7b, 320, and 214. The expression pattern of a third group of microRNAs (125a, 92, 30c, 99b, 125b, 181a, 191, and 9) was not changed by Tat-treatment.
HVID00011927	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-let-7c-1(let-7c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000830	rat primary cortical neurons	Downregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	-	21786074	Eletto and colleagues reported that a group of six miRNAs (374, 128a, 128b, 100, 25, and 99a) were upregulated and seven miRNAs (let-7e, 298, let-7f, let-7c, let-7b, 320, and 214) were downregulated by Tat in rat primary cortical neurons. Among these, miR-128a has been found to be enriched in the brain, preferentially in the mature neurons.
HVID00011928	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-let-7e	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000832	-	Downregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Quantitative RT-PCR, Immunohistochemistry, MicroRNA microarray, microRNA functional analysis, MicroRNA gene targets prediction, Western blots, Statistical analysis.	18381601	These are designated 128a, 128b, 100, 99a, 30b, 30c, let-7c, let-7f, let-7b, let-7e, 125a, 125b, 191, 181a, and 9. A group of six microRNAs (374, 128a, 128b, 100, 25, and 99a) was upregulated in Tat-treated samples (mean fold change from 4.4 to 1.5; P-value <0.01). The presence of Tat in neurons also determined a downregulation of seven microRNAs: let-7e, 298, let-7f, let-7c, let-7b, 320, and 214. The expression pattern of a third group of microRNAs (125a, 92, 30c, 99b, 125b, 181a, 191, and 9) was not changed by Tat-treatment.
HVID00011929	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-let-7e(let-7e)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000832	rat primary cortical neurons	Downregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	-	21786074	Eletto and colleagues reported that a group of six miRNAs (374, 128a, 128b, 100, 25, and 99a) were upregulated and seven miRNAs (let-7e, 298, let-7f, let-7c, let-7b, 320, and 214) were downregulated by Tat in rat primary cortical neurons. Among these, miR-128a has been found to be enriched in the brain, preferentially in the mature neurons.
HVID00011930	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-let-7f-1	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000833	-	Downregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Quantitative RT-PCR, Immunohistochemistry, MicroRNA microarray, microRNA functional analysis, MicroRNA gene targets prediction, Western blots, Statistical analysis.	18381601	These are designated 128a, 128b, 100, 99a, 30b, 30c, let-7c, let-7f, let-7b, let-7e, 125a, 125b, 191, 181a, and 9. A group of six microRNAs (374, 128a, 128b, 100, 25, and 99a) was upregulated in Tat-treated samples (mean fold change from 4.4 to 1.5; P-value <0.01). The presence of Tat in neurons also determined a downregulation of seven microRNAs: let-7e, 298, let-7f, let-7c, let-7b, 320, and 214. The expression pattern of a third group of microRNAs (125a, 92, 30c, 99b, 125b, 181a, 191, and 9) was not changed by Tat-treatment.
HVID00011931	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-let-7f-1(let-7f)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000833	rat primary cortical neurons	Downregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	-	21786074	Eletto and colleagues reported that a group of six miRNAs (374, 128a, 128b, 100, 25, and 99a) were upregulated and seven miRNAs (let-7e, 298, let-7f, let-7c, let-7b, 320, and 214) were downregulated by Tat in rat primary cortical neurons. Among these, miR-128a has been found to be enriched in the brain, preferentially in the mature neurons.
HVID00011932	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-100	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000885	-	Upregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Quantitative RT-PCR, Immunohistochemistry, MicroRNA microarray, microRNA functional analysis, MicroRNA gene targets prediction, Western blots, Statistical analysis.	18381601	These are designated 128a, 128b, 100, 99a, 30b, 30c, let-7c, let-7f, let-7b, let-7e, 125a, 125b, 191, 181a, and 9. A group of six microRNAs (374, 128a, 128b, 100, 25, and 99a) was upregulated in Tat-treated samples (mean fold change from 4.4 to 1.5; P-value <0.01). The presence of Tat in neurons also determined a downregulation of seven microRNAs: let-7e, 298, let-7f, let-7c, let-7b, 320, and 214. The expression pattern of a third group of microRNAs (125a, 92, 30c, 99b, 125b, 181a, 191, and 9) was not changed by Tat-treatment.
HVID00011933	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-100(miR-100)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000885	rat primary cortical neurons	Upregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	-	21786074	Eletto and colleagues reported that a group of six miRNAs (374, 128a, 128b, 100, 25, and 99a) were upregulated and seven miRNAs (let-7e, 298, let-7f, let-7c, let-7b, 320, and 214) were downregulated by Tat in rat primary cortical neurons. Among these, miR-128a has been found to be enriched in the brain, preferentially in the mature neurons.
HVID00011934	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-128-1(miR-128a )	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000900	-	Upregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Quantitative RT-PCR, Immunohistochemistry, MicroRNA microarray, microRNA functional analysis, MicroRNA gene targets prediction, Western blots, Statistical analysis.	18381601	These are designated 128a, 128b, 100, 99a, 30b, 30c, let-7c, let-7f, let-7b, let-7e, 125a, 125b, 191, 181a, and 9. A group of six microRNAs (374, 128a, 128b, 100, 25, and 99a) was upregulated in Tat-treated samples (mean fold change from 4.4 to 1.5; P-value <0.01). The presence of Tat in neurons also determined a downregulation of seven microRNAs: let-7e, 298, let-7f, let-7c, let-7b, 320, and 214. The expression pattern of a third group of microRNAs (125a, 92, 30c, 99b, 125b, 181a, 191, and 9) was not changed by Tat-treatment.
HVID00011935	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-128-1(miR-128a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000900	rat primary cortical neurons	Upregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	-	21786074	Eletto and colleagues reported that a group of six miRNAs (374, 128a, 128b, 100, 25, and 99a) were upregulated and seven miRNAs (let-7e, 298, let-7f, let-7c, let-7b, 320, and 214) were downregulated by Tat in rat primary cortical neurons. Among these, miR-128a has been found to be enriched in the brain, preferentially in the mature neurons.
HVID00011936	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-128-2(miR-128b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000901	-	Upregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Quantitative RT-PCR, Immunohistochemistry, MicroRNA microarray, microRNA functional analysis, MicroRNA gene targets prediction, Western blots, Statistical analysis.	18381601	These are designated 128a, 128b, 100, 99a, 30b, 30c, let-7c, let-7f, let-7b, let-7e, 125a, 125b, 191, 181a, and 9. A group of six microRNAs (374, 128a, 128b, 100, 25, and 99a) was upregulated in Tat-treated samples (mean fold change from 4.4 to 1.5; P-value <0.01). The presence of Tat in neurons also determined a downregulation of seven microRNAs: let-7e, 298, let-7f, let-7c, let-7b, 320, and 214. The expression pattern of a third group of microRNAs (125a, 92, 30c, 99b, 125b, 181a, 191, and 9) was not changed by Tat-treatment.
HVID00011937	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-128-2(miR-128b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000901	rat primary cortical neurons	Upregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	-	21786074	Eletto and colleagues reported that a group of six miRNAs (374, 128a, 128b, 100, 25, and 99a) were upregulated and seven miRNAs (let-7e, 298, let-7f, let-7c, let-7b, 320, and 214) were downregulated by Tat in rat primary cortical neurons. Among these, miR-128a has been found to be enriched in the brain, preferentially in the mature neurons.
HVID00011938	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-214	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000954	-	Downregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Quantitative RT-PCR, Immunohistochemistry, MicroRNA microarray, microRNA functional analysis, MicroRNA gene targets prediction, Western blots, Statistical analysis.	18381601	These are designated 128a, 128b, 100, 99a, 30b, 30c, let-7c, let-7f, let-7b, let-7e, 125a, 125b, 191, 181a, and 9. A group of six microRNAs (374, 128a, 128b, 100, 25, and 99a) was upregulated in Tat-treated samples (mean fold change from 4.4 to 1.5; P-value <0.01). The presence of Tat in neurons also determined a downregulation of seven microRNAs: let-7e, 298, let-7f, let-7c, let-7b, 320, and 214. The expression pattern of a third group of microRNAs (125a, 92, 30c, 99b, 125b, 181a, 191, and 9) was not changed by Tat-treatment.
HVID00011939	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-214(miR-214)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000954	rat primary cortical neurons	Downregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	-	21786074	Eletto and colleagues reported that a group of six miRNAs (374, 128a, 128b, 100, 25, and 99a) were upregulated and seven miRNAs (let-7e, 298, let-7f, let-7c, let-7b, 320, and 214) were downregulated by Tat in rat primary cortical neurons. Among these, miR-128a has been found to be enriched in the brain, preferentially in the mature neurons.
HVID00011940	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-25	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000856	-	Upregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Quantitative RT-PCR, Immunohistochemistry, MicroRNA microarray, microRNA functional analysis, MicroRNA gene targets prediction, Western blots, Statistical analysis.	18381601	These are designated 128a, 128b, 100, 99a, 30b, 30c, let-7c, let-7f, let-7b, let-7e, 125a, 125b, 191, 181a, and 9. A group of six microRNAs (374, 128a, 128b, 100, 25, and 99a) was upregulated in Tat-treated samples (mean fold change from 4.4 to 1.5; P-value <0.01). The presence of Tat in neurons also determined a downregulation of seven microRNAs: let-7e, 298, let-7f, let-7c, let-7b, 320, and 214. The expression pattern of a third group of microRNAs (125a, 92, 30c, 99b, 125b, 181a, 191, and 9) was not changed by Tat-treatment.
HVID00011941	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-25(miR-25)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000856	rat primary cortical neurons	Upregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	-	21786074	Eletto and colleagues reported that a group of six miRNAs (374, 128a, 128b, 100, 25, and 99a) were upregulated and seven miRNAs (let-7e, 298, let-7f, let-7c, let-7b, 320, and 214) were downregulated by Tat in rat primary cortical neurons. Among these, miR-128a has been found to be enriched in the brain, preferentially in the mature neurons.
HVID00011942	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-298	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000969	-	Downregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Quantitative RT-PCR, Immunohistochemistry, MicroRNA microarray, microRNA functional analysis, MicroRNA gene targets prediction, Western blots, Statistical analysis.	18381601	These are designated 128a, 128b, 100, 99a, 30b, 30c, let-7c, let-7f, let-7b, let-7e, 125a, 125b, 191, 181a, and 9. A group of six microRNAs (374, 128a, 128b, 100, 25, and 99a) was upregulated in Tat-treated samples (mean fold change from 4.4 to 1.5; P-value <0.01). The presence of Tat in neurons also determined a downregulation of seven microRNAs: let-7e, 298, let-7f, let-7c, let-7b, 320, and 214. The expression pattern of a third group of microRNAs (125a, 92, 30c, 99b, 125b, 181a, 191, and 9) was not changed by Tat-treatment.
HVID00011943	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-298(miR-298)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000969	rat primary cortical neurons	Downregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	-	21786074	Eletto and colleagues reported that a group of six miRNAs (374, 128a, 128b, 100, 25, and 99a) were upregulated and seven miRNAs (let-7e, 298, let-7f, let-7c, let-7b, 320, and 214) were downregulated by Tat in rat primary cortical neurons. Among these, miR-128a has been found to be enriched in the brain, preferentially in the mature neurons.
HVID00011944	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-320	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000972	-	Downregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Quantitative RT-PCR, Immunohistochemistry, MicroRNA microarray, microRNA functional analysis, MicroRNA gene targets prediction, Western blots, Statistical analysis.	18381601	These are designated 128a, 128b, 100, 99a, 30b, 30c, let-7c, let-7f, let-7b, let-7e, 125a, 125b, 191, 181a, and 9. A group of six microRNAs (374, 128a, 128b, 100, 25, and 99a) was upregulated in Tat-treated samples (mean fold change from 4.4 to 1.5; P-value <0.01). The presence of Tat in neurons also determined a downregulation of seven microRNAs: let-7e, 298, let-7f, let-7c, let-7b, 320, and 214. The expression pattern of a third group of microRNAs (125a, 92, 30c, 99b, 125b, 181a, 191, and 9) was not changed by Tat-treatment.
HVID00011945	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-320(miR-320)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000972	rat primary cortical neurons	Downregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	-	21786074	Eletto and colleagues reported that a group of six miRNAs (374, 128a, 128b, 100, 25, and 99a) were upregulated and seven miRNAs (let-7e, 298, let-7f, let-7c, let-7b, 320, and 214) were downregulated by Tat in rat primary cortical neurons. Among these, miR-128a has been found to be enriched in the brain, preferentially in the mature neurons.
HVID00011946	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-374	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003552	-	Upregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Quantitative RT-PCR, Immunohistochemistry, MicroRNA microarray, microRNA functional analysis, MicroRNA gene targets prediction, Western blots, Statistical analysis.	18381601	These are designated 128a, 128b, 100, 99a, 30b, 30c, let-7c, let-7f, let-7b, let-7e, 125a, 125b, 191, 181a, and 9. A group of six microRNAs (374, 128a, 128b, 100, 25, and 99a) was upregulated in Tat-treated samples (mean fold change from 4.4 to 1.5; P-value <0.01). The presence of Tat in neurons also determined a downregulation of seven microRNAs: let-7e, 298, let-7f, let-7c, let-7b, 320, and 214. The expression pattern of a third group of microRNAs (125a, 92, 30c, 99b, 125b, 181a, 191, and 9) was not changed by Tat-treatment.
HVID00011947	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-374(miR-374)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003552	rat primary cortical neurons	Upregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	-	21786074	Eletto and colleagues reported that a group of six miRNAs (374, 128a, 128b, 100, 25, and 99a) were upregulated and seven miRNAs (let-7e, 298, let-7f, let-7c, let-7b, 320, and 214) were downregulated by Tat in rat primary cortical neurons. Among these, miR-128a has been found to be enriched in the brain, preferentially in the mature neurons.
HVID00011948	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-99a	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000883	-	Upregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	Quantitative RT-PCR, Immunohistochemistry, MicroRNA microarray, microRNA functional analysis, MicroRNA gene targets prediction, Western blots, Statistical analysis.	18381601	These are designated 128a, 128b, 100, 99a, 30b, 30c, let-7c, let-7f, let-7b, let-7e, 125a, 125b, 191, 181a, and 9. A group of six microRNAs (374, 128a, 128b, 100, 25, and 99a) was upregulated in Tat-treated samples (mean fold change from 4.4 to 1.5; P-value <0.01). The presence of Tat in neurons also determined a downregulation of seven microRNAs: let-7e, 298, let-7f, let-7c, let-7b, 320, and 214. The expression pattern of a third group of microRNAs (125a, 92, 30c, 99b, 125b, 181a, 191, and 9) was not changed by Tat-treatment.
HVID00011949	Human immunodeficiency virus 1(HIV-1)	Rattus norvegicus	Host	miRNA	rno-mir-99a(miR-99a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000883	rat primary cortical neurons	Upregulation	Virus	Protein	tat(Tat)	http://www.ncbi.nlm.nih.gov/gene/155871	-	-	21786074	Eletto and colleagues reported that a group of six miRNAs (374, 128a, 128b, 100, 25, and 99a) were upregulated and seven miRNAs (let-7e, 298, let-7f, let-7c, let-7b, 320, and 214) were downregulated by Tat in rat primary cortical neurons. Among these, miR-128a has been found to be enriched in the brain, preferentially in the mature neurons.
HVID00011950	Human papillomavirus 16(HPV16)	Homo sapiens	Host	miRNA	hsa-mir-203a(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000283	-	Upregulation	Virus	Protein	E6	http://www.ncbi.nlm.nih.gov/gene/1489078	Downregulation	Western blot analysis, microRNA real-time PCR, Reverse transcription-PCR (RT-PCR) analysis, Northern blotting for microRNAs, Immunofluorescence staining and analysis.	20702634	We report that proliferation of HFKs is dependent on the level of miR-203 expression and that overexpression of miR-203 can reduce overproliferation in E6/E7-expressing and p53i HFKs. In summary, these results indicate that expression of miR-203 is dependent on p53, which may explain how expression of HPV16 E6 can disrupt the balance between proliferation and differentiation, as well as the response to DNA damage, in keratinocytes.
HVID00011951	Human papillomavirus 16(HPV16)	Homo sapiens	Host	miRNA	hsa-mir-203a(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000283	-	Upregulation	Virus	Protein	E7	http://www.ncbi.nlm.nih.gov/gene/1489079	Downregulation	Western blot analysis, microRNA real-time PCR, Reverse transcription-PCR (RT-PCR) analysis, Northern blotting for microRNAs, Immunofluorescence staining and analysis.	20702634	We report that proliferation of HFKs is dependent on the level of miR-203 expression and that overexpression of miR-203 can reduce overproliferation in E6/E7-expressing and p53i HFKs. In summary, these results indicate that expression of miR-203 is dependent on p53, which may explain how expression of HPV16 E6 can disrupt the balance between proliferation and differentiation, as well as the response to DNA damage, in keratinocytes.
HVID00011952	Human papillomavirus 16(HPV16)	Homo sapiens	Host	miRNA	hsa-mir-205(miR-205)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000285	HFKs	Downregulation	Virus	Protein	E6	http://www.ncbi.nlm.nih.gov/gene/1489078	-	Immunofluorescent analysis,Luciferase reporter assay,Western blot analysis,RT-PCR analysis,microRNA real-time PCR,Northern blotting for microRNAs.	24314651	We investigated how expression of Human Papilloma Virus Type-16 (HPV16) onco-proteins E6 and E7 affected expression of miR-24 and miR-205 during proliferation and differentiation of HFKs. We show that the induction of both miR-24 and miR-205 observed during differentiation of HFKs is lost in HFKs expressing E6 and E7.
HVID00011953	Human papillomavirus 16(HPV16)	Homo sapiens	Host	miRNA	hsa-mir-205(miR-205)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000285	HFKs	Downregulation	Virus	Protein	E7	http://www.ncbi.nlm.nih.gov/gene/1489079	-	Immunofluorescent analysis,Luciferase reporter assay,Western blot analysis,RT-PCR analysis,microRNA real-time PCR,Northern blotting for microRNAs.	24314651	We investigated how expression of Human Papilloma Virus Type-16 (HPV16) onco-proteins E6 and E7 affected expression of miR-24 and miR-205 during proliferation and differentiation of HFKs. We show that the induction of both miR-24 and miR-205 observed during differentiation of HFKs is lost in HFKs expressing E6 and E7.
HVID00011954	Human papillomavirus 16(HPV16)	Homo sapiens	Host	miRNA	hsa-mir-24(miR-24)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000080	HFKs	Downregulation	Virus	Protein	E6	http://www.ncbi.nlm.nih.gov/gene/1489078	-	Immunofluorescent analysis,Luciferase reporter assay,Western blot analysis,RT-PCR analysis,microRNA real-time PCR,Northern blotting for microRNAs.	24314651	We investigated how expression of Human Papilloma Virus Type-16 (HPV16) onco-proteins E6 and E7 affected expression of miR-24 and miR-205 during proliferation and differentiation of HFKs. We show that the induction of both miR-24 and miR-205 observed during differentiation of HFKs is lost in HFKs expressing E6 and E7.
HVID00011955	Human papillomavirus 16(HPV16)	Homo sapiens	Host	miRNA	hsa-mir-24(miR-24)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000080	HFKs	Downregulation	Virus	Protein	E7	http://www.ncbi.nlm.nih.gov/gene/1489079	-	Immunofluorescent analysis,Luciferase reporter assay,Western blot analysis,RT-PCR analysis,microRNA real-time PCR,Northern blotting for microRNAs.	24314651	We investigated how expression of Human Papilloma Virus Type-16 (HPV16) onco-proteins E6 and E7 affected expression of miR-24 and miR-205 during proliferation and differentiation of HFKs. We show that the induction of both miR-24 and miR-205 observed during differentiation of HFKs is lost in HFKs expressing E6 and E7.
HVID00011956	Human papillomavirus 16(HPV16)	Homo sapiens	Host	miRNA	hsa-mir-34a(miR-34a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000268	Cervical	Downregulation	Virus	Protein	E6	http://www.ncbi.nlm.nih.gov/gene/1489078	-	Retrovirus infection, Immunohistochemistry and microscopy, miRNA ligation assay, Northern blot analysis, and organotypic cultures, RNAi interference, Primary human keratinocytes, Western blot analysis, Cell transfection, Flow cytometry.	19258450	The reduction of miR-34a expression in organotypic tissues derived from HPV-containing primary human keratinocytes correlates with the early productive phase and is attributed to the expression of viral E6, which destabilizes the tumor suppressor p53, a known miR-34a transactivator.
HVID00011957	Human papillomavirus(HPV)	Homo sapiens	Host	LncRNA	ASncmtRNA-1	#	HFK698 cells	Downregulation	Virus	Protein	E2	http://www.ncbi.nlm.nih.gov/gene/13887826	Downregulation	RT-PCR Amplification/In Situ Hybridization(ISH).	22539350	Here we show that immortalization of HFK with HPV-16 or 18 causes down-regulation of the ASncmtRNAs and induces the expression of a new sense transcript named SncmtRNA-2. Transduction of HFK with both E6 and E7 is sufficient to induce expression of SncmtRNA-2. Moreover, E2 oncogene is involved in down-regulation of the ASncmtRNAs. Knockdown of E2 in immortalized cells reestablishes in a reversible manner the expression of the ASncmtRNAs, suggesting that endogenous cellular factors(s) could play functions analogous to E2 during non-HPV-induced oncogenesis.ASncmtRNAs Are Down-regulated in HPV-immortalized Cells As seen in Fig. 1.
HVID00011958	Human papillomavirus(HPV)	Homo sapiens	Host	LncRNA	ASncmtRNA-2	#	HFK698 cells	Downregulation	Virus	Protein	E2	http://www.ncbi.nlm.nih.gov/gene/13887826	Downregulation	RT-PCR Amplification/In Situ Hybridization(ISH).	22539350	Here we show that immortalization of HFK with HPV-16 or 18 causes down-regulation of the ASncmtRNAs and induces the expression of a new sense transcript named SncmtRNA-2. Transduction of HFK with both E6 and E7 is sufficient to induce expression of SncmtRNA-2. Moreover, E2 oncogene is involved in down-regulation of the ASncmtRNAs. Knockdown of E2 in immortalized cells reestablishes in a reversible manner the expression of the ASncmtRNAs, suggesting that endogenous cellular factors(s) could play functions analogous to E2 during non-HPV-induced oncogenesis.ASncmtRNAs Are Down-regulated in HPV-immortalized Cells As seen in Fig. 1.
HVID00011959	Human papillomavirus(HPV)	Homo sapiens	Host	miRNA	hsa-mir-100(miR-100)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000102	organotypic raft cultures of foreskin and vaginal keratinocytes	Downregulation	Virus	Protein	E6	http://www.ncbi.nlm.nih.gov/gene/1489078	-	RT-qPCR.	24591631	Interestingly, miR-22, miR-27a,miR-29a, and miR-100 were all moderately down-regulated by either E6 or E7, with miR-22 and miR-27a being slightly more susceptible to E7 than to E6.
HVID00011960	Human papillomavirus(HPV)	Homo sapiens	Host	miRNA	hsa-mir-100(miR-100)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000102	organotypic raft cultures of foreskin and vaginal keratinocytes	Downregulation	Virus	Protein	E7	http://www.ncbi.nlm.nih.gov/gene/1489079	-	RT-qPCR.	24591631	Interestingly, miR-22, miR-27a,miR-29a, and miR-100 were all moderately down-regulated by either E6 or E7, with miR-22 and miR-27a being slightly more susceptible to E7 than to E6.
HVID00011961	Human papillomavirus(HPV)	Homo sapiens	Host	miRNA	hsa-mir-203a(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000283	Foreskin keratinocytes	Downregulation	Virus	Protein	E7	http://www.ncbi.nlm.nih.gov/gene/1489079	-	QRT-PCR, Luciferase assay, Northern blot analysis, Western blot analysis, Southern blot analysis.	20219920	We show that the HPV E7 protein downregulates miR-203 expression upon differentiation, which may occur through the mitogen-activated protein(MAP) kinase/protein kinase C(PKC) pathway.One factor that negatively regulates proliferative capability upon differentiation is microRNA 203 (miR-203), which is expressed primarily in suprabasal epithelial cells. Although HPVs do not encode their own microRNAs (miRNAs), they modulate expression of cellular miRNAs to regulate the activities of cellular proteins. .
HVID00011962	Human papillomavirus(HPV)	Homo sapiens	Host	miRNA	hsa-mir-203b(miR-203)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0017343	Foreskin keratinocytes	Downregulation	Virus	Protein	E7	http://www.ncbi.nlm.nih.gov/gene/1489079	-	QRT-PCR, Luciferase assay, Northern blot analysis, Western blot analysis, Southern blot analysis.	20219920	We show that the HPV E7 protein downregulates miR-203 expression upon differentiation, which may occur through the mitogen-activated protein(MAP) kinase/protein kinase C(PKC) pathway.One factor that negatively regulates proliferative capability upon differentiation is microRNA 203 (miR-203), which is expressed primarily in suprabasal epithelial cells. Although HPVs do not encode their own microRNAs (miRNAs), they modulate expression of cellular miRNAs to regulate the activities of cellular proteins. .
HVID00011963	Human papillomavirus(HPV)	Homo sapiens	Host	miRNA	hsa-mir-22(miR-22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000078	organotypic raft cultures of foreskin and vaginal keratinocytes	Downregulation	Virus	Protein	E6	http://www.ncbi.nlm.nih.gov/gene/1489078	-	RT-qPCR.	24591631	Interestingly, miR-22, miR-27a,miR-29a, and miR-100 were all moderately down-regulated by either E6 or E7, with miR-22 and miR-27a being slightly more susceptible to E7 than to E6.
HVID00011964	Human papillomavirus(HPV)	Homo sapiens	Host	miRNA	hsa-mir-22(miR-22)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000078	organotypic raft cultures of foreskin and vaginal keratinocytes	Downregulation	Virus	Protein	E7	http://www.ncbi.nlm.nih.gov/gene/1489079	-	RT-qPCR.	24591631	Interestingly, miR-22, miR-27a,miR-29a, and miR-100 were all moderately down-regulated by either E6 or E7, with miR-22 and miR-27a being slightly more susceptible to E7 than to E6.
HVID00011965	Human papillomavirus(HPV)	Homo sapiens	Host	miRNA	hsa-mir-25(miR-25)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000082	organotypic raft cultures of foreskin and vaginal keratinocytes	Upregulation	Virus	Protein	E7	http://www.ncbi.nlm.nih.gov/gene/1489079	-	RT-qPCR.	24591631	As expected, E6 decreased the expression of miR-34a, whereas E7 did not. In contrast, HPV18 E7 significantly increased the expression of miR-25, whereas HPV18 E6 had no effect.
HVID00011966	Human papillomavirus(HPV)	Homo sapiens	Host	miRNA	hsa-mir-27a(miR-27a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000085	organotypic raft cultures of foreskin and vaginal keratinocytes	Downregulation	Virus	Protein	E6	http://www.ncbi.nlm.nih.gov/gene/1489078	-	RT-qPCR.	24591631	Interestingly, miR-22, miR-27a,miR-29a, and miR-100 were all moderately down-regulated by either E6 or E7, with miR-22 and miR-27a being slightly more susceptible to E7 than to E6.
HVID00011967	Human papillomavirus(HPV)	Homo sapiens	Host	miRNA	hsa-mir-27a(miR-27a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000085	organotypic raft cultures of foreskin and vaginal keratinocytes	Downregulation	Virus	Protein	E7	http://www.ncbi.nlm.nih.gov/gene/1489079	-	RT-qPCR.	24591631	Interestingly, miR-22, miR-27a,miR-29a, and miR-100 were all moderately down-regulated by either E6 or E7, with miR-22 and miR-27a being slightly more susceptible to E7 than to E6.
HVID00011968	Human papillomavirus(HPV)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	organotypic raft cultures of foreskin and vaginal keratinocytes	Downregulation	Virus	Protein	E6	http://www.ncbi.nlm.nih.gov/gene/1489078	-	RT-qPCR.	24591631	Interestingly, miR-22, miR-27a,miR-29a, and miR-100 were all moderately down-regulated by either E6 or E7, with miR-22 and miR-27a being slightly more susceptible to E7 than to E6.
HVID00011969	Human papillomavirus(HPV)	Homo sapiens	Host	miRNA	hsa-mir-29a(miR-29a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000087	organotypic raft cultures of foreskin and vaginal keratinocytes	Downregulation	Virus	Protein	E7	http://www.ncbi.nlm.nih.gov/gene/1489079	-	RT-qPCR.	24591631	Interestingly, miR-22, miR-27a,miR-29a, and miR-100 were all moderately down-regulated by either E6 or E7, with miR-22 and miR-27a being slightly more susceptible to E7 than to E6.
HVID00011970	Human papillomavirus(HPV)	Homo sapiens	Host	miRNA	hsa-mir-34a(miR-34a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000268	organotypic raft cultures of foreskin and vaginal keratinocytes	Downregulation	Virus	Protein	E6	http://www.ncbi.nlm.nih.gov/gene/1489078	-	RT-qPCR.	24591631	As expected, E6 decreased the expression of miR-34a, whereas E7 did not. In contrast, HPV18 E7 significantly increased the expression of miR-25, whereas HPV18 E6 had no effect.
HVID00011971	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-let-7c(let-7c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000064	Lung epithelial cells	Upregulation	Virus	Protein	M1	http://www.ncbi.nlm.nih.gov/gene/956527	-	Luciferase reporter.	22452878	Specifically, miR-let-7c was highly up-regulated in IV-infected A549 cells. PITA and miRanda database screening indicated that the let-7c seed sequence is a perfect complementary sequence match to the 3' untranslated region (UTR) of viral gene M1 (+) cRNA, but not to PB2 and PA. As detected by a luciferase reporter system, let-7c directly targeted the 3'-UTR of M1 (+) cRNA, but not PB2 and PA.
HVID00011972	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-323a(miR-323)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000807	MDCK cells	-	Virus	mRNA	PB1	http://www.ncbi.nlm.nih.gov/gene/956534	Downregulation	Luciferase assay, Real-time reverse transcription-PCR analysis, HA assay, Western blot assay, Fluorescence microscopy.	20554777	The results showed that miRNA 323 (miR-323), miR-491, and miR-654 inhibit replication of the H1N1 influenza A virus through binding to the PB1 gene. Moreover mutational analysis of the predicted miRNA binding sites showed that the three miRNAs bind to the same conserved region of the PB1 gene. Intriguingly, despite the fact that the miRNAs and PB1 mRNA binding sequences are not a perfect match, the miRNAs downregulate PB1 expression through mRNA degradation instead of translation repression.
HVID00011973	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-491(miR-491)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003126	MDCK cells	-	Virus	mRNA	PB1	http://www.ncbi.nlm.nih.gov/gene/956534	Downregulation	Luciferase assay, Real-time reverse transcription-PCR analysis, HA assay, Western blot assay, Fluorescence microscopy.	20554777	The results showed that miRNA 323 (miR-323), miR-491, and miR-654 inhibit replication of the H1N1 influenza A virus through binding to the PB1 gene. Moreover mutational analysis of the predicted miRNA binding sites showed that the three miRNAs bind to the same conserved region of the PB1 gene. Intriguingly, despite the fact that the miRNAs and PB1 mRNA binding sequences are not a perfect match, the miRNAs downregulate PB1 expression through mRNA degradation instead of translation repression.
HVID00011974	Influenza A virus H1N1(H1N1)	Homo sapiens	Host	miRNA	hsa-mir-654(miR-654)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003676	MDCK cells	-	Virus	mRNA	PB1	http://www.ncbi.nlm.nih.gov/gene/956534	Downregulation	Luciferase assay, Real-time reverse transcription-PCR analysis, HA assay, Western blot assay, Fluorescence microscopy.	20554777	The results showed that miRNA 323 (miR-323), miR-491, and miR-654 inhibit replication of the H1N1 influenza A virus through binding to the PB1 gene. Moreover mutational analysis of the predicted miRNA binding sites showed that the three miRNAs bind to the same conserved region of the PB1 gene. Intriguingly, despite the fact that the miRNAs and PB1 mRNA binding sequences are not a perfect match, the miRNAs downregulate PB1 expression through mRNA degradation instead of translation repression.
HVID00011975	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-1258(hsa-miR-1258)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006392	-	-	Virus	Protein	RTA	#	Downregulation	Bioinformatics and luciferase reporter analyses.	24554664	Bioinformatics and luciferase reporter analyses showed that one of the Nef-upregulated miRNAs, cellular miRNA 1258 (hsa-miR-1258), directly targeted a seed sequence in the 3' untranslated region (UTR) of the mRNA encoding the major lytic switch protein (RTA), which controls KSHV reactivation from latency.
HVID00011976	Kaposi's sarcoma-associated herpesvirus(KSHV)	Homo sapiens	Host	miRNA	hsa-mir-1293( miR-1293)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006355	HEK293 and HeLa cells	-	Virus	Protein	K2（VIL-6）	http://www.ncbi.nlm.nih.gov/gene/4961449	Downregulation	Immunohistochemistry and Immunofluorescence, qRT-PCR, Transient cotransfection, ELISA, Western blot analysis.	21984125	We show a direct repression of vIL6 by hsa-miR-1293 and hIL6 by hsa-miR-608. The repression of vIL6 by miR-1293 was reversed by disruption of the vIL6 miR-1293 seed match through the introduction of point mutations. In addition, expression of vIL6 or hIL6 in KSHV-infected cells could be enhanced by transfection of the respective miRNA inhibitors.
HVID00011977	Mink enteritis virus(MEV)	Neovison vison	Host	miRNA	miR-181b	#	feline kidney (F81) cell line	Downregulation	Virus	mRNA	NS1	#	Downregulation	Cell Culture.	24349084	Our study revealed that miRNA miR-181b inhibited replication of MEV in the feline kidney (F81) cell line by targeting the MEV non-structural protein 1 (NS1) messenger RNA (mRNA) coding region, resulting in NS1 translational repression, while MEV infection reduced miR-181b expression.
HVID00011978	Primate foamy virus 1(PFV-1)	Homo sapiens	Host	miRNA	hsa-mir-32(miR-32)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0020490	293T cells	Downregulation	Virus	Protein	Tas	#	-	Western and Northern analysis.	15845854	miR-32-mediated translational inhibition was indeed suppressed in Tas-expressing BHK21 cells.
HVID00011979	Human respiratory syncytial virus(RSV)	Homo sapiens	Host	miRNA	hsa-let-7i(let-7i)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000434	Epithelial cells	Upregulation	Virus	Protein	NS1	http://www.ncbi.nlm.nih.gov/gene/1494468	-	TaqMan real-time PCR, Immunoblotting, miRNA array.	23249809	Interestingly, we found that the RSV nonstructural genes NS1 and NS2 antagonized the upregulation of let-7i and miR-30b. RSV appears to manipulate host cell gene expression through regulation of expression of miRNAs related to the interferon response. The data suggest a new mechanism of virus-host cell interactions for paramyxoviruses.
HVID00011980	Human respiratory syncytial virus(RSV)	Homo sapiens	Host	miRNA	hsa-mir-30b(miR-30b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000441	Epithelial cells	Upregulation	Virus	Protein	NS2	http://www.ncbi.nlm.nih.gov/gene/1489819	-	TaqMan real-time PCR, Immunoblotting, miRNA array.	23249809	Interestingly, we found that the RSV nonstructural genes NS1 and NS2 antagonized the upregulation of let-7i and miR-30b. RSV appears to manipulate host cell gene expression through regulation of expression of miRNAs related to the interferon response. The data suggest a new mechanism of virus-host cell interactions for paramyxoviruses.
HVID00011981	Simian immunodeficiency virus(SIV)	Callithrix jacchus	Host	miRNA	miR-146a	-	Macaque macrophages	-	Virus	Protein	nef(Nef)	http://www.ncbi.nlm.nih.gov/gene/1490008	Downregulation	Luciferase assays.	23988154	SIV RNA levels as well as Virus production was downregulated by direct targeting of the SIV Nef/U3 and R regions by four miRNAs. miRs-29a, -29b, -9 and -146a were induced in primary macrophages after SIV infection.Our data demonstrate that levels of primary transcripts and mature miRs-29a, -29b, -9 and -146a are modulated by SIV infection. We show that the SIV 3' UTR contains functional miRNA response elements (MREs) for all four miRNAs. Notably, these miRNAs regulate virus production and viral RNA levels in macrophages, the primary cells infected in the CNS that drive inflammation leading.to HIV-associated neurocognitive disorders. .
HVID00011982	Simian immunodeficiency virus(SIV)	Callithrix jacchus	Host	miRNA	miR-29a	-	Macaque macrophages	-	Virus	Protein	nef(Nef)	http://www.ncbi.nlm.nih.gov/gene/1490008	Downregulation	Luciferase assays.	23988154	SIV RNA levels as well as Virus production was downregulated by direct targeting of the SIV Nef/U3 and R regions by four miRNAs. miRs-29a, -29b, -9 and -146a were induced in primary macrophages after SIV infection.Our data demonstrate that levels of primary transcripts and mature miRs-29a, -29b, -9 and -146a are modulated by SIV infection. We show that the SIV 3' UTR contains functional miRNA response elements (MREs) for all four miRNAs. Notably, these miRNAs regulate virus production and viral RNA levels in macrophages, the primary cells infected in the CNS that drive inflammation leading.to HIV-associated neurocognitive disorders. .
HVID00011983	Simian immunodeficiency virus(SIV)	Callithrix jacchus	Host	miRNA	miR-29b	-	Macaque macrophages	-	Virus	Protein	nef(Nef)	http://www.ncbi.nlm.nih.gov/gene/1490008	Downregulation	Luciferase assays.	23988154	SIV RNA levels as well as Virus production was downregulated by direct targeting of the SIV Nef/U3 and R regions by four miRNAs. miRs-29a, -29b, -9 and -146a were induced in primary macrophages after SIV infection.Our data demonstrate that levels of primary transcripts and mature miRs-29a, -29b, -9 and -146a are modulated by SIV infection. We show that the SIV 3' UTR contains functional miRNA response elements (MREs) for all four miRNAs. Notably, these miRNAs regulate virus production and viral RNA levels in macrophages, the primary cells infected in the CNS that drive inflammation leading.to HIV-associated neurocognitive disorders. .
HVID00011984	Simian immunodeficiency virus(SIV)	Callithrix jacchus	Host	miRNA	miR-9	-	Macaque macrophages	-	Virus	Protein	nef(Nef)	http://www.ncbi.nlm.nih.gov/gene/1490008	Downregulation	Luciferase assays.	23988154	SIV RNA levels as well as Virus production was downregulated by direct targeting of the SIV Nef/U3 and R regions by four miRNAs. miRs-29a, -29b, -9 and -146a were induced in primary macrophages after SIV infection.Our data demonstrate that levels of primary transcripts and mature miRs-29a, -29b, -9 and -146a are modulated by SIV infection. We show that the SIV 3' UTR contains functional miRNA response elements (MREs) for all four miRNAs. Notably, these miRNAs regulate virus production and viral RNA levels in macrophages, the primary cells infected in the CNS that drive inflammation leading.to HIV-associated neurocognitive disorders. .
HVID00011985	Simian virus 40(SV40)	Homo sapiens	Host	miRNA	hsa-miR-423-5p	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0004748	HeLa cells	-	Virus	Protein	SV40gp6(T antigen)	http://www.ncbi.nlm.nih.gov/gene/1489531	Downregulation	Fluorescence reporter assays.	22558366	Using the new reporter system, it was found that sv40-mir-S1-5p and hsa-miR423-5p downregulate the expression of common artificial target mRNAs and some predicted biological targets of hsa-miR423-5p, demonstrating that they are functional orthologs.These results demonstrated that SV40-encoded miRNA miR-S1-5p should act as a functional ortholog of the human-derived miRNA miR423-5p. SV40-encoded miR-S1-5p was reported to downregulate the expression of viral T antigen without reducing the yield of infectious virus,thus reducing host cytotoxic T lymphocyte (CTL) susceptibility and local cytokine release. .
HVID00011986	Vesicular stomatitis virus(VSV)	Mus musculus	Host	miRNA	mmu-miR-24-3p(miR24)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000219	Dicer1(d/d) cells	-	Virus	Protein	L	http://www.ncbi.nlm.nih.gov/gene/1489835	Downregulation	-	17613256	Rather,we found that host miR24 and miR93 could target viral large protein(L protein) and phosphoprotein(P protein) genes, and a lack of miR24 and miR93 was responsible for increased VSV replication in Dicer1(d/d) cells.
HVID00011987	Vesicular stomatitis virus(VSV)	Mus musculus	Host	miRNA	mmu-miR-24-3p(miR24)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000219	Dicer1(d/d) cells	-	Virus	Protein	P	http://www.ncbi.nlm.nih.gov/gene/1489832	Downregulation	-	17613256	Rather,we found that host miR24 and miR93 could target viral large protein(L protein) and phosphoprotein(P protein) genes, and a lack of miR24 and miR93 was responsible for increased VSV replication in Dicer2(d/d) cells.
HVID00011988	Vesicular stomatitis virus(VSV)	Mus musculus	Host	miRNA	mmu-miR-93-5p (miR93)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000540	Dicer1(d/d) cells	-	Virus	Protein	L	http://www.ncbi.nlm.nih.gov/gene/1489835	Downregulation	-	17613256	Rather,we found that host miR24 and miR93 could target viral large protein(L protein) and phosphoprotein(P protein) genes, and a lack of miR24 and miR93 was responsible for increased VSV replication in Dicer1(d/d) cells.
HVID00011989	Vesicular stomatitis virus(VSV)	Mus musculus	Host	miRNA	mmu-miR-93-5p (miR93)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000540	Dicer1(d/d) cells	-	Virus	Protein	P	http://www.ncbi.nlm.nih.gov/gene/1489832	Downregulation	-	17613256	Rather,we found that host miR24 and miR93 could target viral large protein(L protein) and phosphoprotein(P protein) genes, and a lack of miR24 and miR93 was responsible for increased VSV replication in Dicer2(d/d) cells.
HVID00011990	White spot syndrome virus(WSSV)	Litopenaeus vannamei 	Host	miRNA	lva-mir-7(miR-7)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0025136	-	-	Virus	Protein	Wsv477	http://www.ncbi.nlm.nih.gov/gene/926984	-	Shrimp culture and shrimp infection by WSSV, Cell culture, transfection, and fluorescence assays, Northern blotting, Western blotting, Statistical analysis, Quantitative real-time PCR.	23015693	In this study, the results showed that shrimp miR-7 could target the 3'-untranslated region(3'UTR) of the WSSV early gene wsv477, implying that miR-7 was involved in viral DNA replication. In insect High Five cells, the synthesized miR-7 significantly decreased the expression level of the fluorescent construct bearing the 3=UTR of wsv477 compared with the expression of the control constructs. .
VHID00011991	Hepatitis C virus(HCV)	Homo sapiens	Virus	LncRNA	vmr11	#	human hepatocytes 	-	Host	Protein	PTEN	http://www.ncbi.nlm.nih.gov/gene/5728	Downregulation	Real time Quantitative PCR, Subcellular protein fractionation and Western blot, Immunostaining	25075209	An HCV-derived small non-coding RNA inhibits Transportin-2 and PTEN translocation to the nucleus, suggesting a direct viral role in hepatic oncogenesis.
VHID00011992	Hepatitis C virus(HCV)	Homo sapiens	Virus	LncRNA	vmr11	#	Post-attachment primary human hepatocytes 	-	Host	Protein	TNPO2(Transportin-2)	http://www.ncbi.nlm.nih.gov/gene/30000	Downregulation	Real time Quantitative PCR, Subcellular protein fractionation and Western blot, Immunostaining	25075209	An HCV-derived small non-coding RNA inhibits Transportin-2 and PTEN translocation to the nucleus, suggesting a direct viral role in hepatic oncogenesis.
VHID00011993	Dengue virus(DENV)	Homo sapiens	Virus	LncRNA	sfRNA	http://www.lncrnadb.org/Detail.aspx?TKeyID=225	HuH-7 hepatocellular carcinoma cells	-	Host	Protein	G3BP1	http://www.ncbi.nlm.nih.gov/gene/10146	Downregulation	siRNA-mediated knockdown of gene expression, Polyribosome fractionation, ISRE-luciferase reporters	24992036	Their antiviral activity was antagonized by the abundant DENV-2 non-coding subgenomic flaviviral RNA(sfRNA), which bound to G3BP1, G3BP2 and CAPRIN1, inhibited their activity and lead to profound inhibition of ISG mRNA translation.
VHID00011994	Dengue virus(DENV)	Homo sapiens	Virus	LncRNA	sfRNA	http://www.lncrnadb.org/Detail.aspx?TKeyID=225	HuH-7 hepatocellular carcinoma cells	-	Host	Protein	G3BP2	http://www.ncbi.nlm.nih.gov/gene/9908	Downregulation	siRNA-mediated knockdown of gene expression, Polyribosome fractionation, ISRE-luciferase reporters	24992036	Their antiviral activity was antagonized by the abundant DENV-2 non-coding subgenomic flaviviral RNA(sfRNA), which bound to G3BP1, G3BP2 and CAPRIN2, inhibited their activity and lead to profound inhibition of ISG mRNA translation.
VHID00011995	Dengue virus(DENV)	Homo sapiens	Virus	LncRNA	sfRNA	http://www.lncrnadb.org/Detail.aspx?TKeyID=225	HuH-7 hepatocellular carcinoma cells	-	Host	Protein	CAPRIN1	http://www.ncbi.nlm.nih.gov/gene/4076	Downregulation	siRNA-mediated knockdown of gene expression, Polyribosome fractionation, ISRE-luciferase reporters	24992036	Their antiviral activity was antagonized by the abundant DENV-2 non-coding subgenomic flaviviral RNA(sfRNA), which bound to G3BP1, G3BP2 and CAPRIN3, inhibited their activity and lead to profound inhibition of ISG mRNA translation.
VHID00011996	Dengue virus(DENV)	Homo sapiens	Virus	LncRNA	sfRNA	http://www.lncrnadb.org/Detail.aspx?TKeyID=225	HuH-7 hepatocellular carcinoma cells	-	Host	Protein	IFIT3(ISG)	http://www.ncbi.nlm.nih.gov/gene/3437	Downregulation	siRNA-mediated knockdown of gene expression, Polyribosome fractionation, ISRE-luciferase reporters	24992036	Their antiviral activity was antagonized by the abundant DENV-2 non-coding subgenomic flaviviral RNA(sfRNA), which bound to G3BP1, G3BP2 and CAPRIN4, inhibited their activity and lead to profound inhibition of ISG mRNA translation.
HHID00011997	Pseudorabies virus(PRV)	Sus scrofa	Host	miRNA	ssc-mir-21(miR-21)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0002459	PRV-infected porcine kidney 15 cell line(PK-15)	Upregulation	Host	Protein	CXCL10(IP-10)	http://www.ncbi.nlm.nih.gov/gene/494019	Downregulation	miRNA microarray	24889251	In this study, we used miRNA microarray approaches to assess miRNA expression in PRV-infected porcine kidney 15 cell line(PK-15), and observed that miR-21 was expressed at high level 12h after the cells were infected with PRV. Furthermore, we identified chemokine(C-X-C motif) ligand 10(CXCL10), also named interferon-gamma inducible protein-10(IP-10), as a novel target gene of miR-21. IP-10 was down-regulated at 4h after PRV infection
HVID00011998	Dengue virus(DENV)	Aedes albopictus	Host	miRNA	miR-252	#	Ae. albopictus C6/36 cellline	Upregulation	Virus	Protein	E	#	Downregulation	luciferase activity of a luciferase reporter	25025105	Transfection with miR-252 inhibitor resulted in the increase of DENV-2 RNA copies and the up-regulation of DENV-2 envelop protein(E protein) expression, whereas over expression of miR-252 with its mimic decreased DENV RNA copies and the down-regulation of E protein expression. 
HHID00011999	Bovine viral diarrhea virus(BVDV)	Bovine	Host	miRNA	bta-miR-29b	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005043	Madin-Darby bovine kidney(MDBK) cells	Upregulation	Host	mRNA	CASP7(caspase-7)	http://www.ncbi.nlm.nih.gov/gene/526279	Downregulation	Dual-luciferase reporter assay, Real-time PCR, Western blots analysis, Flow cytometry analysis, Rescuing of caspase-7 and NAIF1 analysis, BVDV NADL replication analysis	24965127	We showed that miR-29b target sequences were present in the 3' untranslated regions of 2 key apoptosis regulators mRNAs, cysteine aspartases-7 (caspase-7) and nuclear apoptosis-inducing factor 1 (NAIF1). Indeed, upon miRNA overexpression, both mRNA and protein levels of caspase-7 and NAIF1 were decreased. We further found that miR-29b attenuated apoptosis by directly regulating intracellular levels of caspase-7 and NAIF1. Moreover, apoptosis blockage by miR-29b was rescued upon co-infection of MDBK cells with lentiviruses expressing caspase-7 and NAIF1. Importantly, miR-29b decreased BVDV NADL envelope glycoprotein E1 mRNA levels and suppressed viral replication.
HHID00012000	Bovine viral diarrhea virus(BVDV)	Bovine	Host	miRNA	bta-miR-29b	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005043	Madin-Darby bovine kidney(MDBK) cells	Upregulation	Host	mRNA	NAIF1	http://www.ncbi.nlm.nih.gov/gene/510689	Downregulation	Dual-luciferase reporter assay, Real-time PCR, Western blots analysis, Flow cytometry analysis, Rescuing of caspase-7 and NAIF1 analysis, BVDV NADL replication analysis	24965127	We showed that miR-29b target sequences were present in the 3' untranslated regions of 2 key apoptosis regulators mRNAs, cysteine aspartases-7 (caspase-7) and nuclear apoptosis-inducing factor 1 (NAIF1). Indeed, upon miRNA overexpression, both mRNA and protein levels of caspase-7 and NAIF1 were decreased. We further found that miR-29b attenuated apoptosis by directly regulating intracellular levels of caspase-7 and NAIF1. Moreover, apoptosis blockage by miR-29b was rescued upon co-infection of MDBK cells with lentiviruses expressing caspase-7 and NAIF1. Importantly, miR-29b decreased BVDV NADL envelope glycoprotein E1 mRNA levels and suppressed viral replication.
HVID00012001	Bovine viral diarrhea virus(BVDV)	Bovine	Host	miRNA	bta-miR-29b	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0005043	Madin-Darby bovine kidney(MDBK) cells	Upregulation	Virus	mRNA	PestiV1gp1(E1)	http://www.ncbi.nlm.nih.gov/gene/1489735	Downregulation	Dual-luciferase reporter assay, Real-time PCR, Western blots analysis, Flow cytometry analysis, Rescuing of caspase-7 and NAIF1 analysis, BVDV NADL replication analysis	24965127	We showed that miR-29b target sequences were present in the 3' untranslated regions of 2 key apoptosis regulators mRNAs, cysteine aspartases-7 (caspase-7) and nuclear apoptosis-inducing factor 1 (NAIF1). Indeed, upon miRNA overexpression, both mRNA and protein levels of caspase-7 and NAIF1 were decreased. We further found that miR-29b attenuated apoptosis by directly regulating intracellular levels of caspase-7 and NAIF1. Moreover, apoptosis blockage by miR-29b was rescued upon co-infection of MDBK cells with lentiviruses expressing caspase-7 and NAIF1. Importantly, miR-29b decreased BVDV NADL envelope glycoprotein E1 mRNA levels and suppressed viral replication.
HVID00012002	Human papillomavirus(HPV)	Homo sapiens	Host	LncRNA	MALAT1	http://www.lncrnadb.org/Detail.aspx?TKeyID=93	CaSki cells	Upregulate	Virus	Protein	E7	http://www.ncbi.nlm.nih.gov/gene/?term=1489079	-	RT-PCR, Cell proliferation assay, Cell cycle analysis, Wound healing assay	24932303	Of note, it was revealed that the expression of MALAT1 was decreased with the knockdown of HPV16 E6/E7 in CaSki cells.
HVID00012003	Human papillomavirus(HPV)	Homo sapiens	Host	LncRNA	MALAT1	http://www.lncrnadb.org/Detail.aspx?TKeyID=93	CaSki cells	Upregulate	Virus	Protein	E6	http://www.ncbi.nlm.nih.gov/gene/?term=13887830	-	RT-PCR, Cell proliferation assay, Cell cycle analysis, Wound healing assay	24932303	Of note, it was revealed that the expression of MALAT1 was decreased with the knockdown of HPV16 E6/E7 in CaSki cells.
HVID00012004	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-581(miR-581)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003588	HepG2.2.15 cells	Upregulation	Virus	Protein	HBVgp2(HBsAg)	http://www.ncbi.nlm.nih.gov/gene/944569	Upregualtion	transfection	24913918	Altogether, we conclude that miR-581 promotes HBsAg expression by targeting Dicer and EDEM1. Our findings suggest that downregulation of miR-581 during hepatocarcinogenesis may lead to a reduction in HBsAg expression and impede HCC development.
HHID00012005	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-581(miR-581)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003588	HepG2.2.15 cells	Upregulation	Host	Protein	DICER1(Dicer)	http://www.ncbi.nlm.nih.gov/gene/23405	Upregualtion	transfection	24913918	Altogether, we conclude that miR-581 promotes HBsAg expression by targeting Dicer and EDEM1. Our findings suggest that downregulation of miR-581 during hepatocarcinogenesis may lead to a reduction in HBsAg expression and impede HCC development.
HHID00012006	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-581(miR-581)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003588	HepG2.2.15 cells	Upregulation	Host	Protein	EDEM1	http://www.ncbi.nlm.nih.gov/gene/9695	Upregualtion	transfection	24913918	Altogether, we conclude that miR-581 promotes HBsAg expression by targeting Dicer and EDEM1. Our findings suggest that downregulation of miR-581 during hepatocarcinogenesis may lead to a reduction in HBsAg expression and impede HCC development.
VVID00012007	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(miR-BART20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	AGS cell line	Downregulation	Virus	Protein	BZLF1	http://www.ncbi.nlm.nih.gov/gene/3783744	Upregualtion	Bioinformatic analysis, luciferase reporter assay	24899173	In contrast, BZLF1 and BRLF1 expression in AGS-EBV cells transfected with a miR-BART20-5p inhibitor was enhanced.
VVID00012008	Epstein-Barr virus(EBV)	Homo sapiens	Virus	miRNA	ebv-miR-BART20-5p(miR-BART20-5p)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0003719	AGS cell line	Downregulation	Virus	Protein	BRLF1	http://www.ncbi.nlm.nih.gov/gene/3783727	Upregualtion	Bioinformatic analysis, luciferase reporter assay	24899173	In contrast, BZLF1 and BRLF1 expression in AGS-EBV cells transfected with a miR-BART20-5p inhibitor was enhanced.
HHID00012009	Porcine reproductive and respiratory syndrome virus(PRRSV)	Sus scrofa	Host	miRNA	miR-506	#	MARC-145 cells	Upregulation	Host	mRNA	CD151	http://www.ncbi.nlm.nih.gov/gene/100511619	Downregulation	luciferase reporter assay	24878990	Our results suggested that miR-506 could inhibit PRRSV replication by directly targeting PRRSV receptor of CD151 in MARC-145 cells.
HHID00012010	Influenza A virus(infA)	Mus musculus	Host	miRNA	mmu-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000177	HEK-293T and MDCK cells	Upregulation	Host	mRNA	Socs1(SOCS1)	http://www.ncbi.nlm.nih.gov/gene/12703	Downregulation	qPCR and dual luciferase technology	24876306	Using qPCR and dual luciferase technology we show that miR-155 delivery resulted in a significant increase in cellular miR-155 which facilitated a downregulation of SOCS1 gene expression and a functional increase in IL-6 and IFN-beta cytokines.
HHID00012011	Influenza A virus(infA)	Mus musculus	Host	miRNA	mmu-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000177	HEK-293T and MDCK cells	Upregulation	Host	Protein	Il6(IL-6)	http://www.ncbi.nlm.nih.gov/gene/16193	Upregualtion	qPCR and dual luciferase technology	24876306	Using qPCR and dual luciferase technology we show that miR-155 delivery resulted in a significant increase in cellular miR-155 which facilitated a downregulation of SOCS1 gene expression and a functional increase in IL-6 and IFN-beta cytokines.
HHID00012012	Influenza A virus(infA)	Mus musculus	Host	miRNA	mmu-mir-155(miR-155)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000177	HEK-293T and MDCK cells	Upregulation	Host	Protein	Ifnb1(IFN-beta)	http://www.ncbi.nlm.nih.gov/gene/15977	Upregualtion	qPCR and dual luciferase technology	24876306	Using qPCR and dual luciferase technology we show that miR-155 delivery resulted in a significant increase in cellular miR-155 which facilitated a downregulation of SOCS1 gene expression and a functional increase in IL-6 and IFN-beta cytokines.
HHID00012013	Simian immunodeficiency virus(SIV)	Simian	Host	miRNA	miR-190b	#	CD4(+) T cells	Upregulation	Host	Protein	MTMR6	#	Downregulation	Luciferase reporter assays	24981450	More importantly, miR-190b-mediated MTMR6 downregulation suggests an important mechanism that could keep infected cells in an activated state, thereby promoting viral replication.
HHID00012014	Influenza A virus(infA)	Homo sapiens	Host	miRNA	hsa-mir-29c(miR-29c)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000735	A549 cells	Upregulation	Host	Protein	TNFAIP3(A20)	http://www.ncbi.nlm.nih.gov/gene/7128	Upregualtion	Luciferase reporter assays	24953694	Overexpression of miR-29c with miR-29c mimic enhanced IAV-induced A20 protein expression and conversely that miR-29c inhibitor significantly blocked IAV-induced A20 protein expression in A549 cells.
HHID00012015	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-758(miR-758)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003757	liver cells	Upregulation	Host	Protein	TLR3	http://www.ncbi.nlm.nih.gov/gene/7098	Downregulation	RT-PCR and luciferase reporter analysis	25008898	In conclusion, our results highlight the upregulation of miR-758 expression by HCV as a novel mechanism contributing to downregulation of TLR3 and TLR7 in patients with HCV infection.
HHID00012016	Hepatitis C virus(HCV)	Homo sapiens	Host	miRNA	hsa-mir-758(miR-758)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0003757	liver cells	Upregulation	Host	Protein	TLR7	http://www.ncbi.nlm.nih.gov/gene/51284	Downregulation	RT-PCR and luciferase reporter analysis	25008898	In conclusion, our results highlight the upregulation of miR-758 expression by HCV as a novel mechanism contributing to downregulation of TLR3 and TLR7 in patients with HCV infection.
HHID00012017	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-190a(miR-190)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000486	types I and III latency cells	-	Host	mRNA	NR4A3	http://www.ncbi.nlm.nih.gov/gene/8013	Downregulation	microarray analysis	25086243	By targeting TP53INP1, miR-190 enhances cell survival by preventing apoptosis and relieving G0/G1 cell cycle arrest. Additionally, miR-190 down-regulates NR4A3, a cellular immediate-early gene for EBV reactivation, and inhibits the expression of the viral immediate-early gene bzlf1 and viral lytic DNA replication.
HHID00012018	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-190a(miR-190)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000486	types I and III latency cells	-	Host	mRNA	TP53INP1	http://www.ncbi.nlm.nih.gov/gene/94241	Upregualtion	microarray analysis	25086243	By targeting TP53INP1, miR-190 enhances cell survival by preventing apoptosis and relieving G0/G1 cell cycle arrest. Additionally, miR-190 down-regulates NR4A3, a cellular immediate-early gene for EBV reactivation, and inhibits the expression of the viral immediate-early gene bzlf1 and viral lytic DNA replication.
HHID00012019	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-21(miR-21)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000077	MIHA cells	Upregulation	Host	mRNA	STAT3	http://www.ncbi.nlm.nih.gov/gene/6774	Upregualtion	Luciferase reporter assays	25087183	Subsequently, we showed that the upregulation of miR-21 was mediated by HBx-induced interleukin-6 pathway followed by activation of STAT3 transcriptional factor.
HHID00012020	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-31(miR-31)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000089	NPC cell line	Downregulation	Host	mRNA	FIH1	http://www.ncbi.nlm.nih.gov/gene/55662	-	PCR and Quantitative RT-PCR, In situ hybridization(ISH) analysis, Bisulfite sequencing and Methylation specific-PCR(MSP) analysis, miR-31 mimic and siRNA transfection, Cell proliferation, colony formation and cell migration assays, Anchorage-independent growth and in vivo tumorigenicity assays, Luciferase reporter assay, Western blotting	25098679	Furthermore, we proved that miR-31 suppressed the NPC cell growth via targeting FIH1 and MCM2.
HHID00012021	Epstein-Barr virus(EBV)	Homo sapiens	Host	miRNA	hsa-mir-31(miR-31)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000089	NPC cell line	Downregulation	Host	mRNA	MCM2	http://www.ncbi.nlm.nih.gov/gene/4171	-	PCR and Quantitative RT-PCR, In situ hybridization(ISH) analysis, Bisulfite sequencing and Methylation specific-PCR(MSP) analysis, miR-31 mimic and siRNA transfection, Cell proliferation, colony formation and cell migration assays, Anchorage-independent growth and in vivo tumorigenicity assays, Luciferase reporter assay, Western blotting	25098679	Furthermore, we proved that miR-31 suppressed the NPC cell growth via targeting FIH1 and MCM2.
HHID00012022	Dengue virus(DENV)	Homo sapiens	Host	miRNA	hsa-miR-30e-3p(miR-30e*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000693	human monocyte cell line U937	Upregulation	Host	mRNA	OAS1	http://www.ncbi.nlm.nih.gov/gene/4938	Upregualtion	Quantitative real-time PCR(qRT-PCR), Cell viability analysis, Transient transfection and luciferase assay, Western blot analysis and immunofluorescence assays	25122182	We found that DENV infection could induce miR-30e* expression in DENV-permissive cells, and such an overexpression of miR-30e* upregulated IFN-beta and the downstream IFN-stimulated genes(ISGs) such as OAS1, MxA and IFITM1, and suppressed DENV replication.
HHID00012023	Dengue virus(DENV)	Homo sapiens	Host	miRNA	hsa-miR-30e-3p(miR-30e*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000693	human monocyte cell line U937	Upregulation	Host	mRNA	MxA	http://www.ncbi.nlm.nih.gov/gene/4599	Upregualtion	Quantitative real-time PCR(qRT-PCR), Cell viability analysis, Transient transfection and luciferase assay, Western blot analysis and immunofluorescence assays	25122182	We found that DENV infection could induce miR-30e* expression in DENV-permissive cells, and such an overexpression of miR-30e* upregulated IFN-beta and the downstream IFN-stimulated genes(ISGs) such as OAS1, MxA and IFITM1, and suppressed DENV replication.
HHID00012024	Dengue virus(DENV)	Homo sapiens	Host	miRNA	hsa-miR-30e-3p(miR-30e*)	http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=MIMAT0000693	human monocyte cell line U937	Upregulation	Host	mRNA	IFITM1	http://www.ncbi.nlm.nih.gov/gene/8519	Upregualtion	Quantitative real-time PCR(qRT-PCR), Cell viability analysis, Transient transfection and luciferase assay, Western blot analysis and immunofluorescence assays	25122182	We found that DENV infection could induce miR-30e* expression in DENV-permissive cells, and such an overexpression of miR-30e* upregulated IFN-beta and the downstream IFN-stimulated genes(ISGs) such as OAS1, MxA and IFITM1, and suppressed DENV replication.
HHID00012025	Hepatitis B virus(HBV)	Homo sapiens	Host	miRNA	hsa-mir-125b(miR-125b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000446	HepG2-HBV1.3 and HepG2.2.15 cells	-	Host	mRNA	SCNN1A	http://www.ncbi.nlm.nih.gov/gene/6337	Downregulation	dual luciferase reporter	25173609	miR-125b also inhibited the mRNA and protein levels of SCNN1A.
HVID00012026	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr10:106370573-106373008	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downregulated by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012027	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr10:115824453-115826586	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downregulated by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012028	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr10:12927523-12929693	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012029	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:119004357-119007259	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012030	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:18367483-18393258	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012031	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr1:135599257-135601738	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012032	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr1:158734297-158736426	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012033	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:59011295-59015887	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012034	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:85580335-85589555	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012035	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr12:25645522-25649259	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012036	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr12:77433374-77435129	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012037	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr12:8518007-8569487	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012038	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr13:115743308-115745940	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012039	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr15:100430635-100433197	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012040	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr15:82184918-82188766	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012041	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr17:27372020-27385011	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012042	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr17:31075815-31077651	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012043	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr17:47006033-47023558	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012044	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr18:68419148-68420202	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012045	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr19:24039631-24042105	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012046	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr2:147831590-147834197	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012047	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr2:16675375-16677465	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012048	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr3:137578389-137579521	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012049	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr4:100825987-100829372	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012050	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr4:153651617-153654706	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012051	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr4:154011685-154018825	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012052	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr5:109278803-109287241	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012053	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr5:136147293-136162818	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012054	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr5:25005759-25008367	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012055	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr6:140554415-140560315	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012056	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr6:84562231-84565133	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012057	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr6:92890327-93222971	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012058	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr7:56377704-56415189	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012059	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr7:87236516-87239059	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012060	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr8:70711235-70721660	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012061	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr8:75072315-75075582	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012062	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr9:3900746-3904016	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012063	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr9:3904399-3905785	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012064	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr9:67414463-67483185	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012065	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr10:60892008-60893694	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012066	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr10:62262341-62269871	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012067	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr10:83325890-83402790	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012068	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:102983499-102994239	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012069	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:119322515-119352549	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012070	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr1:11290241-11293554	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012071	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:30183310-30193505	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012072	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:48603904-48611829	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012073	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:69184157-69201732	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012074	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr12:100032658-100035279	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012075	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr12:103508601-103510701	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012076	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr12:45415566-45423476	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012077	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr12:59361747-59364435	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012078	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr13:108825897-108834311	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012079	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr13:23517278-23523756	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012080	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr13:24999460-25001763	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012081	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr13:49063549-49067402	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012082	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr13:94182877-94203852	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012083	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr14:17832997-17838422	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012084	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr14:22808967-22810356	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012085	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr14:51508265-51510242	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012086	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr14:67585234-67596823	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012087	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr1:51796224-51804149	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012088	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr15:37161555-37162896	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012089	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr15:79158057-79159144	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012090	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr15:81073090-81082292	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012091	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr16:4284889-4286151	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012092	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr17:21653417-21672842	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012093	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr1:72680343-72682229	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012094	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr17:31073947-31074476	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012095	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr17:63395303-63398520	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012096	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr18:11003686-11048675	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012097	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr1:82445004-82446218	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012098	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr18:36449530-36456800	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012099	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr18:55149964-55239068	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012100	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr19:40942806-40957129	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012101	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr19:44653018-44654777	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012102	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr19:56675526-56677992	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012103	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr1:98768798-98777807	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012104	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr2:12222652-12233942	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012105	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr2:132079093-132086642	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012106	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr2:164376030-164385230	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012107	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr2:84913771-84934718	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012108	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr2:92581668-92618534	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012109	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr3:102579388-102583783	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012110	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr3:102810059-102812375	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012111	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr3:85775329-85884359	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012112	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr3:87834800-87837072	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012113	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr3:88394620-88412470	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012114	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr3:97066278-97069569	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012115	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr3:97088831-97101701	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012116	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr4:104701771-104703792	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012117	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr4:11893712-11931875	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012118	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr4:154020159-154031159	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012119	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr4:20038233-20042502	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012120	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr4:40667092-40669900	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012121	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr4:53259068-53263987	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012122	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr4:82156098-82196298	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012123	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr5:113594167-113645342	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012124	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr5:120020142-120077391	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012125	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr5:123590337-123590983	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012126	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr5:149751979-149827389	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012127	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr5:53364251-53385674	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012128	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr5:53931541-53945241	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012129	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr5:54296404-54300455	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012130	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr5:91232287-91235418	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012131	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr6:115568814-115571700	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012132	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr6:118537258-118542312	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012133	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr6:30752887-30758830	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012134	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr6:88874003-88884403	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012135	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr6:90833815-90845065	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012136	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr6:90915489-90940052	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012137	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr7:105830846-105851438	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012138	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr7:133021933-133023852	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012139	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr7:63228889-63230212	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012140	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr7:77561248-77568373	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012141	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr7:88668948-88677948	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012142	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr8:10899922-10903874	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012143	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr8:122733358-123011458	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012144	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr8:13200730-13207713	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012145	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr8:42102822-42109808	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012146	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr8:4527036-4529608	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012147	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr8:70601735-70611660	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012148	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr8:71689644-71708114	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012149	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr9:109992261-109994962	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012150	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr9:121665758-121669061	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012151	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr9:14135885-14137545	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012152	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr9:43525339-43544496	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012153	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr9:96222407-96224058	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012154	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chrX:12624343-12643975	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012155	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chrX:148720661-148763177	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012156	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chrX:155824149-155827544	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012157	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr16:30021928-30039565	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012158	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr2:31803025-31804603	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012159	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr6:5169082-5170486	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Downregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012160	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr10:16670901-16815588	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012161	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr10:37057292-37099458	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012162	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr10:69654781-69655946	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012163	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr10:96096971-96113171	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012164	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:102819623-102825468	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012165	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:117835680-117842574	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012166	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:119250824-119286324	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012167	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr1:134237581-134248506	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012168	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr1:162965309-162970704	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012169	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:6421951-6429173	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012170	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:75275041-75280192	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012171	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr1:175350729-175389850	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012172	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr1:175496415-175510531	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012173	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:76400207-76435704	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012174	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr1:196801966-196864099	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012175	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr13:15905381-16115256	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012176	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr13:37871609-37873311	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012177	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr13:99777054-99791650	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012178	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr15:77164450-77201440	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012179	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr16:25013537-25021162	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012180	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr16:84713277-84715489	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012181	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr16:91044901-91056922	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012182	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr17:27703181-27716306	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012183	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr17:79249845-79251884	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012184	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr18:35713064-35717970	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012185	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr18:38957062-38965037	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012186	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr19:11566538-11582584	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012187	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr19:46388591-46389863	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012188	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr2:11261116-11265733	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012189	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr2:126716138-126719837	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012190	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr2:148340274-148351561	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012191	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr2:155651881-155654616	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012192	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr2:180322370-180324419	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012193	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr4:139175321-139176295	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012194	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr4:141441569-141453196	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012195	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr6:134183176-134193729	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012196	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr6:51542766-51562891	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012197	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr6:86477309-86537554	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012198	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr7:105550493-105568318	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012199	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr7:82902248-82955248	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012200	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr9:56108126-56265814	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012201	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chrX:49983775-50002675	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012202	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr1:107866276-107887102	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012203	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:53592946-53637922	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012204	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr11:86394703-86395196	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012205	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr12:10453194-10538109	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012206	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr13:16120653-16123440	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012207	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr16:25039487-25069144	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012208	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr16:84702353-84710928	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012209	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr17:79281382-79291840	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012210	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr17:84470764-84486339	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012211	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr18:60792135-60831035	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012212	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr18:61694966-61696115	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012213	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr19:12592405-12671056	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012214	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr2:117940123-117951453	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012215	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr2:167653193-167659146	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012216	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr3:65730011-65744189	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012217	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr3:7612705-7690001	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012218	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr3:95469971-95478000	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012219	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr3:95493525-95508668	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012220	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr4:6279252-6284677	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012221	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr6:134934743-134936836	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012222	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr6:3283194-3296069	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012223	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr6:39013878-39017585	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012224	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr7:128206366-128207459	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012225	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr7:3221916-3228537	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012226	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr8:129336540-129400338	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012227	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr8:75016833-75029398	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012228	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr8:93340044-93341253	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012229	Severe acute respiratory syndrome coronavirus(SARS-CoV)	Mus musculus	Host	LncRNA	chr9:65368913-65390480	-	mouse-adapted strain MA15 that is lethal in BALB/c mice and that causes 10 to 15% weight loss in young C56BL/6 mice	Upregulation	-	-	-	#	-	Sequencing and read mapping, Quantitative real-time PCR, Sequencing and read mapping, ncRNA annotations and the estimation of expression levels.	20978541	We found that 509 of these loci were differentially expressed during SARS-CoV MA15 infection (Fig. 3), 485 of which had more than 2.5-fold change in at least one of four mouse strains during infection, and 209 of which were all upregulated or all downreguted by at least 1.8-fold in three or more mouse strains (see Tables S2 and S3 in the supplemental material).
HVID00012230	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-let-7e(Let-7e)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000561	mice lung cells	Downregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012231	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-let-7f-1(Let-7f)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000562	mice lung cells	Downregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012232	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-mir-145a(miR-145)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000169	mice lung cells	Downregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012233	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-mir-193a(miR-193)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000235	mice lung cells	Downregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012234	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-mir-200a(miR-200a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000554	mice lung cells	Downregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012235	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-mir-200b(miR-200b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000243	mice lung cells	Downregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012236	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-mir-21a(miR-21)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000569	mice lung cells	Upregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012237	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-mir-223(miR-223)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000703	mice lung cells	Upregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012238	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-mir-27a(miR-27a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000578	mice lung cells	Downregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012239	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-mir-27b(miR-27b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000142	mice lung cells	Downregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012240	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-mir-29a(miR-29a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000576	mice lung cells	Downregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012241	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-mir-29b-1(miR-29b)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000143	mice lung cells	Downregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012242	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-mir-30a(miR-30a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000144	mice lung cells	Downregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012243	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-mir-30d(miR-30d)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000549	mice lung cells	Downregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012244	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-mir-34a(miR-34a)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0000584	mice lung cells	Downregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012245	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-mir-429(miR-429)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0001642	mice lung cells	Downregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012246	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-mir-652(miR-652)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004965	mice lung cells	Downregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.
HVID00012247	Reconstructed 1918 influenza virus(r1918)	Mus musculus	Host	miRNA	mmu-mir-709(miR-709)	http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0004693	mice lung cells	Upregulation	-	-	-	#	-	RNA isolation, MicroRNA microarray analysis, Quantitative real-time PCR, mRNA microarray analysis	20071585	Table 1; We found that a group of microRNAs, including miR-200a and miR-223, were differentially expressed in response to influenza virus infection and that r1918 and A/Texas/36/91 infection induced distinct microRNA expression profiles.